ENTRY       mtr03040                    Pathway
NAME        Spliceosome - Medicago truncatula (barrel medic)
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 mtr03040  Spliceosome
DBLINKS     GO: 0005681
ORGANISM    Medicago truncatula (barrel medic) [GN:mtr]
GENE        112416911  U6 spliceosomal RNA [KO:K14280]
            11418819  DEAD-box ATP-dependent RNA helicase 42 [KO:K12811] [EC:3.6.4.13]
            11431965  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:3.6.4.13]
            25491302  DEAD-box ATP-dependent RNA helicase 15 isoform X1 [KO:K12812] [EC:3.6.4.13]
            11424505  DEAD-box ATP-dependent RNA helicase 15 isoform X1 [KO:K12812] [EC:3.6.4.13]
            11410482  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH1 isoform X2 [KO:K12813] [EC:3.6.4.13]
            25488674  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH1 isoform X1 [KO:K12813] [EC:3.6.4.13]
            11423262  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH7 [KO:K12815] [EC:3.6.4.13]
            25489050  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH7 [KO:K12815] [EC:3.6.4.13]
            11423131  pre-mRNA-processing factor 17 isoform X1 [KO:K12816]
            25493639  pre-mRNA-processing factor 17 isoform X3 [KO:K12816]
            25499124  pre-mRNA-splicing factor 18 [KO:K12817]
            11443762  probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH5 [KO:K12818] [EC:3.6.4.13]
            112418127  putative disease resistance RPP13-like protein 1 [KO:K12818] [EC:3.6.4.13]
            11415010  ATP-dependent RNA helicase DEAH11, chloroplastic-like [KO:K12818] [EC:3.6.4.13]
            11423024  ATP-dependent RNA helicase DEAH11, chloroplastic [KO:K12818] [EC:3.6.4.13]
            25501723  probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH4 [KO:K12818] [EC:3.6.4.13]
            25499129  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH10 [KO:K12818] [EC:3.6.4.13]
            112419119  pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH10 [KO:K12818] [EC:3.6.4.13]
            25482846  ATP-dependent RNA helicase DEAH12, chloroplastic [KO:K12818] [EC:3.6.4.13]
            25482189  probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH5 [KO:K12818] [EC:3.6.4.13]
            25484722  pre-mRNA-splicing factor SLU7-A [KO:K12819]
            25499261  pre-mRNA-splicing factor SLU7-A [KO:K12819]
            11424621  probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH2 [KO:K12820] [EC:3.6.4.13]
            11407634  probable pre-mRNA-splicing factor ATP-dependent RNA helicase DEAH2 isoform X1 [KO:K12820] [EC:3.6.4.13]
            25501710  small nuclear ribonucleoprotein-associated protein B' [KO:K11086]
            11431976  small nuclear ribonucleoprotein-associated protein B [KO:K11086]
            25499104  small nuclear ribonucleoprotein SmD1b [KO:K11087]
            11420807  small nuclear ribonucleoprotein SmD1a [KO:K11087]
            11426500  small nuclear ribonucleoprotein Sm D2 [KO:K11096]
            11425290  small nuclear ribonucleoprotein Sm D2 isoform X1 [KO:K11096]
            11426884  small nuclear ribonucleoprotein SmD3b [KO:K11088]
            11427208  small nuclear ribonucleoprotein E [KO:K11097]
            11406496  small nuclear ribonucleoprotein E [KO:K11097]
            11428365  probable small nuclear ribonucleoprotein F [KO:K11098]
            25496613  probable small nuclear ribonucleoprotein G [KO:K11099]
            11442022  probable small nuclear ribonucleoprotein G [KO:K11099]
            11405190  U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
            25499590  U1 small nuclear ribonucleoprotein A-like isoform X1 [KO:K11091]
            25493023  U1 small nuclear ribonucleoprotein A isoform X1 [KO:K11091]
            25499578  U1 small nuclear ribonucleoprotein C [KO:K11095]
            25484788  U1 small nuclear ribonucleoprotein C [KO:K11095]
            25482046  pre-mRNA-processing protein 40A [KO:K12821]
            25485314  pre-mRNA-processing protein 40A isoform X1 [KO:K12821]
            11405951  RNA-binding protein 25 isoform X1 [KO:K12822]
            11420002  DEAD-box ATP-dependent RNA helicase 46 [KO:K12823] [EC:3.6.4.13]
            11429899  DEAD-box ATP-dependent RNA helicase 20 [KO:K12823] [EC:3.6.4.13]
            25493727  DEAD-box ATP-dependent RNA helicase 20 [KO:K12823] [EC:3.6.4.13]
            25491103  DEAD-box ATP-dependent RNA helicase 20 isoform X1 [KO:K12823] [EC:3.6.4.13]
            11430941  DEAD-box ATP-dependent RNA helicase 46 [KO:K12823] [EC:3.6.4.13]
            11443624  pre-mRNA-processing protein 40C isoform X1 [KO:K12824]
            11409261  transcription initiation factor TFIID subunit 15b isoform X1 [KO:K13098]
            25495091  U2 small nuclear ribonucleoprotein A' [KO:K11092]
            25483670  U2 small nuclear ribonucleoprotein B'' 2 [KO:K11094]
            11416715  U2 small nuclear ribonucleoprotein B'' 2 isoform X2 [KO:K11094]
            11411169  probable splicing factor 3A subunit 1 [KO:K12825]
            25500193  splicing factor 3A subunit 2 [KO:K12826]
            11418483  splicing factor SF3a60 homolog [KO:K12827]
            11424216  splicing factor 3B subunit 1 [KO:K12828]
            11446801  splicing factor 3B subunit 2 isoform X1 [KO:K12829]
            25493205  splicing factor 3B subunit 2 [KO:K12829]
            11444450  spliceosome-associated protein 130 A isoform X1 [KO:K12830]
            25485734  spliceosome-associated protein 130 A [KO:K12830]
            25499564  splicing factor 3B subunit 3 [KO:K12830]
            112419329  LOW QUALITY PROTEIN: pre-mRNA-splicing factor RSE1-like [KO:K12830]
            11442895  spliceosome-associated protein 130 A isoform X1 [KO:K12830]
            11419010  splicing factor 3B subunit 4 [KO:K12831]
            11408527  RNA-binding protein 7 isoform X2 [KO:K12831]
            11407458  uncharacterized protein At4g14342 [KO:K12832]
            11416194  uncharacterized protein At4g14342 [KO:K12832]
            11422865  uncharacterized protein At4g14342 [KO:K12832]
            11431415  splicing factor 3B subunit 6-like protein [KO:K12833]
            11414620  PHD finger-like domain-containing protein 5A [KO:K12834]
            25490917  PHD finger-like domain-containing protein 5A [KO:K12834]
            11432035  DEAD-box ATP-dependent RNA helicase 24 [KO:K12835] [EC:3.6.4.13]
            25499390  splicing factor U2af small subunit B [KO:K12836]
            25487504  splicing factor U2af small subunit B [KO:K12836]
            11434844  splicing factor U2af large subunit A isoform X1 [KO:K12837]
            11405354  splicing factor U2af large subunit A isoform X1 [KO:K12837]
            11429844  splicing factor U2af large subunit B isoform X1 [KO:K12837]
            25482990  uncharacterized protein LOC25482990 isoform X2 [KO:K12837]
            25494370  survival of motor neuron-related-splicing factor 30 [KO:K12839]
            11441386  DNA-damage-repair/toleration protein DRT111, chloroplastic [KO:K12840]
            11440509  LOW QUALITY PROTEIN: protein RRC1-like [KO:K12842]
            25499092  sm-like protein LSM2 [KO:K12621]
            11442020  sm-like protein LSM2 [KO:K12621]
            11446185  sm-like protein LSM3A [KO:K12622]
            11426059  sm-like protein LSM4 [KO:K12623]
            11430696  sm-like protein LSM4 [KO:K12623]
            25493392  sm-like protein LSM5 [KO:K12624]
            11420271  sm-like protein LSM6A [KO:K12625]
            25501029  sm-like protein LSM7 [KO:K12626]
            11407370  sm-like protein LSM7 [KO:K12626]
            25493016  sm-like protein LSM8 [KO:K12627]
            112421393  LOW QUALITY PROTEIN: protein RDM16 [KO:K12843]
            11428338  protein RDM16 isoform X1 [KO:K12843]
            11434456  U4/U6 small nuclear ribonucleoprotein PRP4-like protein isoform X2 [KO:K12662]
            25479578  U4/U6 small nuclear ribonucleoprotein PRP4-like protein [KO:K12662]
            25488880  U4/U6 small nuclear ribonucleoprotein PRP4-like protein isoform X2 [KO:K12662]
            11445764  peptidyl-prolyl cis-trans isomerase CYP22 [KO:K09567] [EC:5.2.1.8]
            11440004  U4/U6 small nuclear ribonucleoprotein Prp31 homolog [KO:K12844]
            25479574  NHP2-like protein 1 [KO:K12845]
            11441647  NHP2-like protein 1 [KO:K12845]
            11443782  U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
            25492882  U4/U6.U5 tri-snRNP-associated protein 2 [KO:K12847]
            11437744  U4/U6.U5 tri-snRNP-associated protein 2 [KO:K12847]
            25482516  SART-1 family protein DOT2 [KO:K11984]
            11421963  SART-1 family protein DOT2 isoform X3 [KO:K11984]
            25499650  zinc finger matrin-type protein 2 isoform X1 [KO:K12848]
            11407187  pre-mRNA-splicing factor 38 [KO:K12849]
            11436892  pre-mRNA splicing factor SR-like 1 isoform X1 [KO:K12850]
            11438189  110 kDa U5 small nuclear ribonucleoprotein component CLO [KO:K12852]
            11423909  DExH-box ATP-dependent RNA helicase DExH12 [KO:K12854] [EC:3.6.4.13]
            25498758  protein STABILIZED1 [KO:K12855]
            11433350  protein STABILIZED1 [KO:K12855]
            11428985  U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
            11430254  DEAD-box ATP-dependent RNA helicase 21 [KO:K12858] [EC:3.6.4.13]
            25494333  DEAD-box ATP-dependent RNA helicase 21 [KO:K12858] [EC:3.6.4.13]
            11433035  thioredoxin-like protein YLS8 [KO:K12859]
            11441608  thioredoxin-like protein YLS8 [KO:K12859]
            11421211  thioredoxin-like protein YLS8 [KO:K12859]
            11431087  pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
            11429105  cell division cycle 5-like protein [KO:K12860]
            25499707  cell division cycle 5-like protein [KO:K12860]
            11414393  pre-mRNA-splicing factor SPF27 homolog [KO:K12861]
            25488112  protein pleiotropic regulatory locus 1 [KO:K12862]
            11406364  protein CWC15 homolog [KO:K12863]
            11434378  beta-catenin-like protein 1 [KO:K12864]
            11433850  stromal 70 kDa heat shock-related protein, chloroplastic [KO:K03283]
            11442919  heat shock 70 kDa protein [KO:K03283]
            11438322  heat shock 70 kDa protein 4 [KO:K03283]
            11439333  heat shock 70 kDa protein [KO:K03283]
            11417074  heat shock 70 kDa protein 4 [KO:K03283]
            11437702  heat shock cognate 70 kDa protein [KO:K03283]
            11438126  heat shock cognate 70 kDa protein [KO:K03283]
            25496003  heat shock cognate 70 kDa protein [KO:K03283]
            25495984  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            25497411  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            25497853  heat shock cognate 70 kDa protein [KO:K03283]
            25499929  heat shock cognate 70 kDa protein [KO:K03283]
            11443306  heat shock cognate 70 kDa protein [KO:K03283]
            25500956  heat shock 70 kDa protein 4 [KO:K03283]
            25495969  heat shock 70 kDa protein 18 [KO:K03283]
            25495973  heat shock 70 kDa protein 18 [KO:K03283]
            25495977  heat shock 70 kDa protein 18 [KO:K03283]
            25495983  heat shock 70 kDa protein 18 [KO:K03283]
            25495985  heat shock cognate 70 kDa protein 2 [KO:K03283]
            25495997  heat shock 70 kDa protein 18 [KO:K03283]
            25491671  LOW QUALITY PROTEIN: heat shock cognate 70 kDa protein [KO:K03283]
            11419378  heat shock cognate 70 kDa protein [KO:K03283]
            25492495  heat shock cognate 70 kDa protein 2 [KO:K03283]
            25492496  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11443124  heat shock 70 kDa protein [KO:K03283]
            11433698  heat shock cognate 70 kDa protein [KO:K03283]
            25486072  heat shock cognate 70 kDa protein [KO:K03283]
            11438302  heat shock cognate 70 kDa protein [KO:K03283]
            11443338  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11443341  heat shock cognate 70 kDa protein 2 [KO:K03283]
            11440833  heat shock 70 kDa protein 4 [KO:K03283]
            11442942  heat shock 70 kDa protein 4 isoform X1 [KO:K03283]
            11438873  heat shock 70 kDa protein 4 [KO:K03283]
            11439796  heat shock cognate 70 kDa protein [KO:K03283]
            11440835  heat shock cognate 70 kDa protein [KO:K03283]
            11440836  heat shock cognate 70 kDa protein [KO:K03283]
            11440351  heat shock cognate 70 kDa protein [KO:K03283]
            11443351  heat shock 70 kDa protein 4 [KO:K03283]
            11446123  heat shock cognate 70 kDa protein [KO:K03283]
            11432624  heat shock cognate 70 kDa protein [KO:K03283]
            11430131  heat shock cognate 70 kDa protein [KO:K03283]
            11423681  heat shock cognate 70 kDa protein 2 [KO:K03283]
            25483290  uncharacterized protein LOC25483290 [KO:K12865]
            11415940  SNW/SKI-interacting protein [KO:K06063]
            11434840  pre-mRNA-splicing factor SYF1 [KO:K12867]
            25485617  pre-mRNA-splicing factor syf2 isoform X3 [KO:K12868]
            11415167  pre-mRNA-splicing factor clf1 [KO:K12869]
            11426099  crooked neck-like protein 1 [KO:K12869]
            25494066  crooked neck-like protein 1 [KO:K12869]
            11439028  crooked neck-like protein 1 [KO:K12869]
            11437391  pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
            25499410  peptidyl-prolyl cis-trans isomerase CYP18-2 [KO:K12733] [EC:5.2.1.8]
            25484545  coiled-coil domain-containing protein 12 [KO:K12871]
            11439454  zinc finger CCCH domain-containing protein 49 [KO:K12872]
            11409732  protein BUD31 homolog 2 [KO:K12873]
            25494003  protein BUD31 homolog 2 [KO:K12873]
            25482853  RNA helicase aquarius [KO:K12874]
            11439947  actin cytoskeleton-regulatory complex protein PAN1 [KO:K12875]
            11408942  formin-like protein 5 [KO:K12875]
            25488222  eukaryotic initiation factor 4A-3 [KO:K13025] [EC:3.6.4.13]
            11427477  RNA-binding protein Y14A [KO:K12876]
            11423378  protein mago nashi homolog [KO:K12877]
            11421539  protein mago nashi homolog [KO:K12877]
            112420425  THO complex subunit 1 [KO:K12878]
            11435146  THO complex subunit 2 [KO:K12879]
            11410144  THO complex subunit 2 [KO:K12879]
            11438034  THO complex subunit 3 [KO:K12880]
            11406653  THO complex subunit 4D [KO:K12881]
            25492480  THO complex subunit 4A [KO:K12881]
            11446087  THO complex subunit 4B [KO:K12881]
            11429115  nuclear cap-binding protein subunit 1 [KO:K12882]
            25487697  nuclear cap-binding protein subunit 2 [KO:K12883]
            11428326  glycine-rich RNA-binding protein 3, mitochondrial [KO:K12741]
            11427003  heterogeneous nuclear ribonucleoprotein A1 [KO:K12741]
            25502531  UBP1-associated protein 2C [KO:K12741]
            25497513  glycine-rich RNA-binding protein 1 [KO:K12741]
            25495139  heterogeneous nuclear ribonucleoprotein 1 [KO:K12741]
            11444562  UBP1-associated protein 2C [KO:K12741]
            25493886  glycine-rich RNA-binding protein 2, mitochondrial isoform X1 [KO:K12741]
            11435209  UBP1-associated protein 2A [KO:K12741]
            11436987  UBP1-associated protein 2A [KO:K12741]
            11424462  serine/arginine-rich splicing factor SR30 [KO:K12890]
            11430016  serine/arginine-rich-splicing factor SR34-like [KO:K12890]
            11430819  serine/arginine-rich splicing factor SR34A isoform X1 [KO:K12890]
            11412312  serine/arginine-rich splicing factor SR30 [KO:K12890]
            11413893  serine/arginine-rich-splicing factor SR34 [KO:K12890]
            25493273  serine/arginine-rich splicing factor SC35 isoform X1 [KO:K12891]
            11409922  serine/arginine-rich splicing factor SC35 [KO:K12891]
            11445062  serine/arginine-rich splicing factor RS31 isoform X1 [KO:K12893]
            25500953  serine/arginine-rich splicing factor RS41 isoform X1 [KO:K12893]
            11422261  serine/arginine-rich splicing factor RS40 isoform X1 [KO:K12893]
            112418704  serine/arginine-rich splicing factor RSZ22A-like [KO:K12896]
            112417497  serine/arginine-rich splicing factor RSZ21 [KO:K12896]
            112416407  serine/arginine-rich splicing factor RS2Z32 isoform X1 [KO:K12896]
            11440544  serine/arginine-rich splicing factor SR45a [KO:K12897]
            11430997  serine/arginine-rich splicing factor SR45a [KO:K12897]
            11432730  serine/arginine-rich SC35-like splicing factor SCL33 [KO:K12900]
            11411739  serine/arginine-rich SC35-like splicing factor SCL28 [KO:K12900]
            11433183  serine/arginine-rich SC35-like splicing factor SCL30 [KO:K12900]
            25483590  serine/arginine-rich SC35-like splicing factor SCL33 [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
///
