ENTRY       ath03040                    Pathway
NAME        Spliceosome - Arabidopsis thaliana (thale cress)
DESCRIPTION After transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, the spliceosome. The standard spliceosome is made up of five small nuclear ribonucleoproteins (snRNPs), U1, U2, U4, U5, and U6 snRNPs, and several spliceosome-associated proteins (SAPs). Spliceosomes are not a simple stable complex, but a dynamic family of particles that assemble on the mRNA precursor and help fold it into a conformation that allows transesterification to proceed. Various spliceosome forms (e.g. A-, B- and C-complexes) have been identified.
CLASS       Genetic Information Processing; Transcription
PATHWAY_MAP ath03040  Spliceosome
DBLINKS     GO: 0005681
ORGANISM    Arabidopsis thaliana (thale cress) [GN:ath]
GENE        AT1G08115  U1.5; snRNA [KO:K14276]
            AT5G04315  U1.9; other RNA [KO:K14276]
            AT3G56705  U2.6; U2.6; snRNA [KO:K14277]
            AT2G04375  U2.10; other RNA [KO:K14277]
            AT1G04897  U4.6; other RNA [KO:K14278]
            AT3G06900  U4.2; U4.2; snRNA [KO:K14278]
            AT5G04085  U4.5; other RNA [KO:K14278]
            AT1G70185  other RNA [KO:K14279]
            AT3G13855  U6-26; U6-26; snRNA [KO:K14280]
            AT4G04615  U6.4; other RNA [KO:K14280]
            AT4G08755  U6.5; other RNA [KO:K14280]
            AT1G20920  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12811] [EC:3.6.4.13]
            AT3G09620  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12811] [EC:3.6.4.13]
            AT5G11170  UAP56a; DEAD/DEAH box RNA helicase family protein [KO:K12812] [EC:3.6.4.13]
            AT5G11200  UAP56b; DEAD/DEAH box RNA helicase family protein [KO:K12812] [EC:3.6.4.13]
            AT1G32490  ESP3; RNA helicase family protein [KO:K12813] [EC:3.6.4.13]
            AT4G16680  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12813] [EC:3.6.4.13]
            AT2G35340  MEE29; helicase domain-containing protein [KO:K12813] [EC:3.6.4.13]
            AT5G13010  EMB3011; RNA helicase family protein [KO:K12815] [EC:3.6.4.13]
            AT1G10580  Transducin/WD40 repeat-like superfamily protein [KO:K12816]
            AT1G03140  splicing factor Prp18 family protein [KO:K12817]
            AT1G54590  pre-mRNA-splicing factor-like protein [KO:K12817]
            AT3G26560  ATP-dependent RNA helicase [KO:K12818] [EC:3.6.4.13]
            AT4G01020  helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-like protein [KO:K12818] [EC:3.6.4.13]
            AT5G10370  helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-like protein [KO:K12818] [EC:3.6.4.13]
            AT1G27900  RNA helicase family protein [KO:K12818] [EC:3.6.4.13]
            AT1G26370  RNA helicase family protein [KO:K12818] [EC:3.6.4.13]
            AT1G65660  SMP1; Pre-mRNA splicing Prp18-interacting factor [KO:K12819]
            AT3G45950  Pre-mRNA splicing Prp18-interacting factor [KO:K12819]
            AT4G37120  SMP2; Pre-mRNA splicing Prp18-interacting factor [KO:K12819]
            AT3G62310  RNA helicase family protein [KO:K12820] [EC:3.6.4.13]
            AT2G47250  RNA helicase family protein [KO:K12820] [EC:3.6.4.13]
            AT5G14900  helicase associated (HA2) domain-containing protein [KO:K12820] [EC:3.6.4.13]
            AT4G20440  smB; small nuclear ribonucleoprotein associated protein B [KO:K11086]
            AT5G44500  Small nuclear ribonucleoprotein family protein [KO:K11086]
            AT3G07590  Small nuclear ribonucleoprotein family protein [KO:K11087]
            AT4G02840  Small nuclear ribonucleoprotein family protein [KO:K11087]
            AT2G47640  Small nuclear ribonucleoprotein family protein [KO:K11096]
            AT3G62840  Small nuclear ribonucleoprotein family protein [KO:K11096]
            AT1G76300  SmD3; snRNP core protein SMD3 [KO:K11088]
            AT1G20580  Small nuclear ribonucleoprotein family protein [KO:K11088]
            AT4G30330  Small nuclear ribonucleoprotein family protein [KO:K11097]
            AT2G18740  Small nuclear ribonucleoprotein family protein [KO:K11097]
            AT4G30220  RUXF; small nuclear ribonucleoprotein F [KO:K11098]
            AT2G14285  Small nuclear ribonucleoprotein family protein [KO:K11098]
            AT3G11500  Small nuclear ribonucleoprotein family protein [KO:K11099]
            AT2G23930  SNRNP-G; Putative small nuclear ribonucleoprotein G [KO:K11099]
            AT3G50670  U1-70K; U1 small nuclear ribonucleoprotein-70K [KO:K11093]
            AT2G47580  U1A; spliceosomal protein U1A [KO:K11091]
            AT4G03120  C2H2 and C2HC zinc fingers superfamily protein [KO:K11095]
            AT1G44910  PRP40A; pre-mRNA-processing protein 40A [KO:K12821]
            AT3G19670  PRP40B; pre-mRNA-processing protein 40B [KO:K12821]
            AT1G60200  splicing factor PWI domain-containing protein / RNA recognition motif (RRM)-containing protein [KO:K12822]
            AT1G55150  RH20; DEA(D/H)-box RNA helicase family protein [KO:K12823] [EC:3.6.4.13]
            AT3G01540  DRH1; DEAD box RNA helicase 1 [KO:K12823] [EC:3.6.4.13]
            AT3G06480  DEAD box RNA helicase family protein [KO:K12823] [EC:3.6.4.13]
            AT5G14610  DEAD box RNA helicase family protein [KO:K12823] [EC:3.6.4.13]
            AT5G63120  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12823] [EC:3.6.4.13]
            AT3G19840  PRP40C; pre-mRNA-processing protein 40C [KO:K12824]
            AT5G58470  TAF15b; TBP-associated factor 15B [KO:K13098]
            AT1G09760  U2A'; U2 small nuclear ribonucleoprotein A [KO:K11092]
            AT2G30260  U2B''; U2 small nuclear ribonucleoprotein B [KO:K11094]
            AT1G06960  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K11094]
            AT1G14650  SWAP (Suppressor-of-White-APricot)/surp domain-containing protein / ubiquitin family protein [KO:K12825]
            AT1G14640  SWAP (Suppressor-of-White-APricot)/surp domain-containing protein [KO:K12825]
            AT4G16200  SWAP (Suppressor-of-White-APricot)/surp domain-containing protein [KO:K12825]
            AT5G06520  SWAP (Suppressor-of-White-APricot)/surp domain-containing protein [KO:K12825]
            AT2G43960  SWAP (Suppressor-of-White-APricot)/surp domain-containing protein [KO:K12825]
            AT3G27600  SWAP (Suppressor-of-White-APricot)/surp RNA-binding domain-containing protein [KO:K12825]
            AT2G32600  hydroxyproline-rich glycoprotein family protein [KO:K12826]
            AT5G06160  ATO; splicing factor-like protein [KO:K12827]
            AT5G64270  splicing factor [KO:K12828]
            AT4G21660  proline-rich spliceosome-associated (PSP) family protein [KO:K12829]
            AT3G55200  SAP130a; Cleavage and polyadenylation specificity factor (CPSF) A subunit protein [KO:K12830]
            AT3G55220  SAP130b; Cleavage and polyadenylation specificity factor (CPSF) A subunit protein [KO:K12830]
            AT3G11960  Cleavage and polyadenylation specificity factor (CPSF) A subunit protein [KO:K12830]
            AT2G18510  emb2444; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12831]
            AT4G10110  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12831]
            AT4G14342  Splicing factor 3B subunit 5/RDS3 complex subunit 10 [KO:K12832]
            AT3G23325  Splicing factor 3B subunit 5/RDS3 complex subunit 10 [KO:K12832]
            AT5G12190  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12833]
            AT2G14870  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12833]
            AT1G07170  PHF5-like protein [KO:K12834]
            AT2G30000  PHF5-like protein [KO:K12834]
            AT2G47330  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12835] [EC:3.6.4.13]
            AT5G42820  U2AF35B; Zinc finger C-x8-C-x5-C-x3-H type family protein [KO:K12836]
            AT3G44785  Zinc finger C-x8-C-x5-C-x3-H type family protein [KO:K12836]
            AT1G27650  ATU2AF35A; U2 snRNP auxiliary factor small subunit [KO:K12836]
            AT1G60900  U2 snRNP auxilliary factor, large subunit, splicing factor [KO:K12837]
            AT4G36690  ATU2AF65A; U2 snRNP auxilliary factor, large subunit, splicing factor [KO:K12837]
            AT1G60830  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12837]
            AT2G02570  nucleic acid binding/RNA binding protein [KO:K12839]
            AT1G30480  DRT111; D111/G-patch domain-containing protein [KO:K12840]
            AT5G25060  RRC1; RNA recognition motif (RRM)-containing protein [KO:K12842]
            AT5G10800  RNA recognition motif (RRM)-containing protein [KO:K12842]
            AT1G03330  LSM2; Small nuclear ribonucleoprotein family protein [KO:K12621]
            AT1G76860  LSM3B; Small nuclear ribonucleoprotein family protein [KO:K12622]
            AT1G21190  LSM3A; Small nuclear ribonucleoprotein family protein [KO:K12622]
            AT5G27720  emb1644; Small nuclear ribonucleoprotein family protein [KO:K12623]
            AT5G48870  SAD1; Small nuclear ribonucleoprotein family protein [KO:K12624]
            AT3G59810  LSM6A; Small nuclear ribonucleoprotein family protein [KO:K12625]
            AT2G43810  LSM6B; Small nuclear ribonucleoprotein family protein [KO:K12625]
            AT2G03870  EMB2816; Small nuclear ribonucleoprotein family protein [KO:K12626]
            AT1G65700  LSM8; Small nuclear ribonucleoprotein family protein [KO:K12627]
            AT1G28060  Pre-mRNA-splicing factor 3 [KO:K12843]
            AT3G55930  pre-mRNA-splicing factor [KO:K12843]
            AT2G41500  LIS; WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-like protein [KO:K12662]
            AT2G38730  Cyclophilin-like peptidyl-prolyl cis-trans isomerase family protein [KO:K09567] [EC:5.2.1.8]
            AT1G60170  emb1220; pre-mRNA processing ribonucleoprotein binding region-containing protein [KO:K12844]
            AT4G22380  Ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein [KO:K12845]
            AT4G12600  Ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein [KO:K12845]
            AT5G20160  Ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein [KO:K12845]
            AT5G57370  U4/U6.U5 small nuclear ribonucleoprotein [KO:K12846]
            AT4G22350  Ubiquitin C-terminal hydrolases superfamily protein [KO:K12847]
            AT4G22285  Ubiquitin C-terminal hydrolases superfamily protein [KO:K12847]
            AT4G22410  U4/U6.U5 tri-snRNP-associated-like protein [KO:K12847]
            AT5G16780  DOT2; SART-1 family [KO:K11984]
            AT3G14700  SART-1 family [KO:K11984]
            AT3G05760  C2H2 and C2HC zinc fingers superfamily protein [KO:K12848]
            AT2G40650  PRP38 family protein [KO:K12849]
            AT5G37370  ATSRL1; PRP38 family protein [KO:K12850]
            AT1G06220  MEE5; Ribosomal protein S5/Elongation factor G/III/V family protein [KO:K12852]
            AT5G25230  Ribosomal protein S5/Elongation factor G/III/V family protein [KO:K12852]
            AT1G20960  emb1507; U5 small nuclear ribonucleoprotein helicase [KO:K12854] [EC:3.6.4.13]
            AT2G42270  U5 small nuclear ribonucleoprotein helicase [KO:K12854] [EC:3.6.4.13]
            AT4G03430  EMB2770; pre-mRNA splicing factor-like protein [KO:K12855]
            AT1G80070  SUS2; Pre-mRNA-processing-splicing factor [KO:K12856]
            AT4G38780  pre-mRNA-processing-splicing factor-like protein [KO:K12856]
            AT2G43770  Transducin/WD40 repeat-like superfamily protein [KO:K12857]
            AT2G33730  P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12858] [EC:3.6.4.13]
            AT1G28180  DEAD-box ATP-dependent RNA helicase-like protein [KO:K12858] [EC:3.6.4.13]
            AT5G08290  YLS8; mRNA splicing factor, thioredoxin-like U5 snRNP [KO:K12859]
            AT1G04510  MAC3A; MOS4-associated complex 3A [KO:K10599] [EC:2.3.2.27]
            AT2G33340  MAC3B; MOS4-associated complex 3B [KO:K10599] [EC:2.3.2.27]
            AT1G09770  CDC5; cell division cycle 5 [KO:K12860]
            AT3G18165  MOS4; modifier of snc1,4 [KO:K12861]
            AT4G15900  PRL1; pleiotropic regulatory locus 1 [KO:K12862]
            AT3G16650  Transducin/WD40 repeat-like superfamily protein [KO:K12862]
            AT3G13200  EMB2769; Cwf15 / Cwc15 cell cycle control family protein [KO:K12863]
            AT3G02710  ARM repeat superfamily protein [KO:K12864]
            AT3G12580  HSP70; heat shock protein 70 [KO:K03283]
            AT3G09440  Heat shock protein 70 (Hsp 70) family protein [KO:K03283]
            AT4G24280  cpHsc70-1; chloroplast heat shock protein 70-1 [KO:K03283]
            AT5G49910  cpHsc70-2; chloroplast heat shock protein 70-2 [KO:K03283]
            AT5G02490  Hsp70-2; Heat shock protein 70 (Hsp 70) family protein [KO:K03283]
            AT5G02500  HSC70-1; heat shock cognate protein 70-1 [KO:K03283]
            AT1G56410  ERD2; heat shock protein 70 (Hsp 70) family protein [KO:K03283]
            AT1G16030  Hsp70b; heat shock protein 70B [KO:K03283]
            AT2G41020  WW domain-containing protein [KO:K12865]
            AT1G77180  SKIP; chromatin protein family [KO:K06063]
            AT5G28740  Tetratricopeptide repeat (TPR)-like superfamily protein [KO:K12867]
            AT2G16860  GCIP-interacting family protein [KO:K12868]
            AT5G41770  crooked neck protein, putative / cell cycle protein [KO:K12869]
            AT3G13210  crooked neck protein, putative / cell cycle protein [KO:K12869]
            AT5G45990  crooked neck protein, putative / cell cycle protein [KO:K12869]
            AT3G18790  pre-mRNA-splicing factor ISY1-like protein [KO:K12870]
            AT2G36130  Cyclophilin-like peptidyl-prolyl cis-trans isomerase family protein [KO:K12733] [EC:5.2.1.8]
            AT3G05070  Cwf18 pre-mRNA splicing factor [KO:K12871]
            AT1G07360  MAC5A; CCCH-type zinc fingerfamily protein with RNA-binding domain-containing protein [KO:K12872]
            AT2G29580  MAC5B; CCCH-type zinc fingerfamily protein with RNA-binding domain-containing protein [KO:K12872]
            AT4G21110  G10 family protein [KO:K12873]
            AT2G38770  EMB2765; P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K12874]
            AT4G39680  SAP domain-containing protein [KO:K12875]
            AT3G19760  EIF4A-III; eukaryotic initiation factor 4A-III [KO:K13025] [EC:3.6.4.13]
            AT1G51380  DEA(D/H)-box RNA helicase family protein [KO:K13025] [EC:3.6.4.13]
            AT1G51510  Y14; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12876]
            AT1G02140  MAGO; mago nashi family protein [KO:K12877]
            AT5G09860  THO1; nuclear matrix protein-like protein [KO:K12878]
            AT1G24706  THO2; THO2 [KO:K12879]
            AT5G56130  TEX1; Transducin/WD40 repeat-like superfamily protein [KO:K12880]
            AT5G02530  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12881]
            AT5G37720  ALY4; ALWAYS EARLY 4 [KO:K12881]
            AT1G66260  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12881]
            AT5G59950  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12881]
            AT2G13540  ABH1; ARM repeat superfamily protein [KO:K12882]
            AT5G44200  CBP20; CAP-binding protein 20 [KO:K12883]
            AT5G40490  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12741]
            AT5G61030  GR-RBP3; glycine-rich RNA-binding protein 3 [KO:K12741]
            AT1G74230  GR-RBP5; glycine-rich RNA-binding protein 5 [KO:K12741]
            AT3G15010  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12741]
            AT3G56860  UBA2A; UBP1-associated protein 2A [KO:K12741]
            AT2G41060  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12741]
            AT1G17640  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12741]
            AT3G13224  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12741]
            AT1G02840  SR34; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12890]
            AT1G09140  SR30; SERINE-ARGININE PROTEIN 30 [KO:K12890]
            AT3G49430  SR34a; SER/ARG-rich protein 34A [KO:K12890]
            AT4G02430  SR34b; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12890]
            AT5G64200  SC35; serine/arginine-rich splicing factor-like protein, putative [KO:K12891]
            AT3G61860  RS31; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12893]
            AT2G46610  RS31a; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12893]
            AT4G25500  RS40; arginine/serine-rich splicing factor 35 [KO:K12893]
            AT5G52040  RS41; RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12893]
            AT3G53500  RS2Z32; RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain-containing protein [KO:K12896]
            AT2G37340  RS2Z33; arginine/serine-rich zinc knuckle-containing protein 33 [KO:K12896]
            AT4G31580  RSZ22; serine/arginine-rich 22 [KO:K12896]
            AT2G24590  RSZ22a; RNA recognition motif and CCHC-type zinc finger domains containing protein [KO:K12896]
            AT1G23860  RSZ21; RS-containing zinc finger protein 21 [KO:K12896]
            AT4G35785  RNA-binding (RRM/RBD/RNP motifs) family protein [KO:K12897]
            AT5G18810  SCL28; SC35-like splicing factor 28 [KO:K12900]
            AT3G13570  SCL30A; SC35-like splicing factor 30A [KO:K12900]
            AT1G55310  SCL33; SC35-like splicing factor 33 [KO:K12900]
            AT3G55460  SCL30; SC35-like splicing factor 30 [KO:K12900]
REFERENCE   PMID:19239890
  AUTHORS   Wahl MC, Will CL, Luhrmann R
  TITLE     The spliceosome: design principles of a dynamic RNP machine.
  JOURNAL   Cell 136:701-18 (2009)
            DOI:10.1016/j.cell.2009.02.009
REFERENCE   PMID:10978320
  AUTHORS   Morris DP, Greenleaf AL
  TITLE     The splicing factor, Prp40, binds the phosphorylated carboxyl-terminal domain of RNA polymerase II.
  JOURNAL   J Biol Chem 275:39935-43 (2000)
            DOI:10.1074/jbc.M004118200
REFERENCE   PMID:17537823
  AUTHORS   Chen YI, Moore RE, Ge HY, Young MK, Lee TD, Stevens SW
  TITLE     Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors.
  JOURNAL   Nucleic Acids Res 35:3928-44 (2007)
            DOI:10.1093/nar/gkm347
REFERENCE   PMID:19733268
  AUTHORS   Ritchie DB, Schellenberg MJ, MacMillan AM
  TITLE     Spliceosome structure: piece by piece.
  JOURNAL   Biochim Biophys Acta 1789:624-33 (2009)
            DOI:10.1016/j.bbagrm.2009.08.010
KO_PATHWAY  ko03040
///
