KEGG   PATHWAY: lcm03040
Entry
lcm03040                    Pathway                                
Name
Spliceosome - Latimeria chalumnae (coelacanth)
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
lcm03040  Spliceosome
lcm03040

Other DBs
GO: 0005681
Organism
Latimeria chalumnae (coelacanth) [GN:lcm]
Gene
102350098  DDX46; DEAD-box helicase 46 [KO:K12811] [EC:5.6.2.7]
102360471  DDX39B; DExD-box helicase 39B [KO:K12812] [EC:5.6.2.7]
102359997  DHX16; DEAH-box helicase 16 [KO:K12813] [EC:5.6.2.6]
102361535  DHX38; DEAH-box helicase 38 [KO:K12815] [EC:5.6.2.6]
102347464  CDC40; cell division cycle 40 [KO:K12816]
102350078  PRPF18; pre-mRNA processing factor 18 [KO:K12817]
102350802  DHX8; DEAH-box helicase 8 [KO:K12818] [EC:5.6.2.6]
102364736  SLU7; SLU7 homolog, splicing factor [KO:K12819]
102364806  DHX15; DEAH-box helicase 15 [KO:K12820] [EC:5.6.2.6]
102356228  SNRPB; small nuclear ribonucleoprotein polypeptides B and B1 [KO:K11086]
102365723  SNRPD1; small nuclear ribonucleoprotein D1 polypeptide [KO:K11087]
102347950  SNRPD2; small nuclear ribonucleoprotein D2 polypeptide [KO:K11096]
102348098  SNRPD3; small nuclear ribonucleoprotein D3 polypeptide [KO:K11088]
102357600  SNRPE; small nuclear ribonucleoprotein polypeptide E [KO:K11097]
102345420  small nuclear ribonucleoprotein F [KO:K11098]
102351564  uncharacterized LOC102351564 [KO:K11098]
102366380  SNRPG; small nuclear ribonucleoprotein polypeptide G [KO:K11099]
102359315  SNRNP70; small nuclear ribonucleoprotein U1 subunit 70 [KO:K11093]
102360185  SNRPA; small nuclear ribonucleoprotein polypeptide A [KO:K11091]
102347044  SNRPC; small nuclear ribonucleoprotein polypeptide C [KO:K11095]
102357469  PRPF40B; pre-mRNA processing factor 40 homolog B [KO:K12821]
102364819  PRPF40A; pre-mRNA processing factor 40 homolog A [KO:K12821]
102348668  RBM25; RNA binding motif protein 25 [KO:K12822]
102362755  DDX5; DEAD-box helicase 5 [KO:K12823] [EC:5.6.2.7]
102350361  TCERG1; transcription elongation regulator 1 [KO:K12824]
102359170  FUS; FUS RNA binding protein [KO:K13098]
102345101  SNRPA1; small nuclear ribonucleoprotein polypeptide A' [KO:K11092]
102350886  SNRPB2; small nuclear ribonucleoprotein polypeptide B2 [KO:K11094]
102349695  SF3A1; splicing factor 3a subunit 1 [KO:K12825]
102367571  SF3A2; splicing factor 3a subunit 2 [KO:K12826]
102366122  SF3A3; splicing factor 3a subunit 3 [KO:K12827]
102350600  SF3B1; splicing factor 3b subunit 1 [KO:K12828]
102350469  SF3B2; splicing factor 3b subunit 2 [KO:K12829]
102347991  SF3B3; splicing factor 3b subunit 3 [KO:K12830]
102352833  SF3B4; splicing factor 3b subunit 4 [KO:K12831]
102366685  SF3B5; splicing factor 3b subunit 5 [KO:K12832]
102363321  SF3B6; splicing factor 3b subunit 6 [KO:K12833]
102361714  PHF5A; PHD finger protein 5A [KO:K12834]
102355112  DDX42; DEAD-box helicase 42 [KO:K12835] [EC:5.6.2.7]
102364147  U2AF1; U2 small nuclear RNA auxiliary factor 1 [KO:K12836]
102359352  U2AF2; U2 small nuclear RNA auxiliary factor 2 [KO:K12837]
102361195  PUF60; poly(U) binding splicing factor 60 [KO:K12838]
102367508  SMNDC1; survival motor neuron domain containing 1 [KO:K12839]
102348736  RBM17; RNA binding motif protein 17 [KO:K12840]
102352914  CHERP; calcium homeostasis endoplasmic reticulum protein [KO:K12841]
102353226  U2SURP; U2 snRNP associated SURP domain containing [KO:K12842]
102361566  U2 snRNP-associated SURP motif-containing protein-like [KO:K12842]
102345500  RP9; retinitis pigmentosa 9 (autosomal dominant) [KO:K19604]
102352591  LSM2; LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12621]
106703644  LSM3; LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12622]
102357508  LSM4; LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12623]
102347003  LSM5; LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12624]
102367496  LSM6; LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12625]
102362026  LSM7; LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12626]
102367425  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
102359715  PRPF3; pre-mRNA processing factor 3 [KO:K12843]
102364453  PRPF4; pre-mRNA processing factor 4 [KO:K12662]
102354379  PPIH; peptidylprolyl isomerase H [KO:K09567] [EC:5.2.1.8]
102363058  PRPF31; pre-mRNA processing factor 31 [KO:K12844]
102367071  SNU13; SNU13 homolog, small nuclear ribonucleoprotein (U4/U6.U5) [KO:K12845]
102351634  SNRNP27; small nuclear ribonucleoprotein U4/U6.U5 subunit 27 [KO:K12846]
102349235  USP39; ubiquitin specific peptidase 39 [KO:K12847]
102355501  SART1; squamous cell carcinoma antigen recognized by T-cells 1 [KO:K11984]
102352978  ZMAT2; zinc finger matrin-type 2 [KO:K12848]
102349769  PRPF38A; pre-mRNA processing factor 38A [KO:K12849]
102354702  PRPF38B; pre-mRNA processing factor 38B [KO:K12850]
102347725  EFTUD2; elongation factor Tu GTP binding domain containing 2 [KO:K12852]
102356968  SNRNP200; small nuclear ribonucleoprotein U5 subunit 200 [KO:K12854] [EC:5.6.2.6]
102361285  PRPF8; pre-mRNA processing factor 8 [KO:K12856]
102351311  SNRNP40; small nuclear ribonucleoprotein U5 subunit 40 [KO:K12857]
102358300  DDX23; DEAD-box helicase 23 [KO:K12858] [EC:5.6.2.7]
102359736  TXNL4A; thioredoxin like 4A [KO:K12859]
106702241  thioredoxin-like protein 4A [KO:K12859]
102351823  PRPF19; pre-mRNA processing factor 19 [KO:K10599] [EC:2.3.2.27]
102347551  CDC5L; cell division cycle 5 like [KO:K12860]
102359923  BCAS2; BCAS2, pre-mRNA processing factor [KO:K12861]
102363822  PLRG1; pleiotropic regulator 1 [KO:K12862]
102346733  CWC15; CWC15 spliceosome associated protein homolog [KO:K12863]
102365613  CTNNBL1; catenin beta like 1 [KO:K12864]
102364156  HSPA8; heat shock protein family A (Hsp70) member 8 [KO:K03283]
102353228  heat shock cognate 71 kDa protein-like [KO:K03283]
102351854  heat shock 70 kDa protein 1-like [KO:K03283]
102359148  heat shock 70 kDa protein [KO:K03283]
102357450  Hsp70; heat shock cognate 71 kDa protein-like [KO:K03283]
102367553  heat shock cognate 71 kDa protein [KO:K03283]
102367299  PQBP1; polyglutamine binding protein 1 [KO:K12865]
102357530  WBP11; WW domain binding protein 11 [KO:K12866]
102353600  SNW1; SNW domain containing 1 [KO:K06063]
102354367  XAB2; XPA binding protein 2 [KO:K12867]
102345275  SYF2; SYF2 pre-mRNA splicing factor [KO:K12868]
102352655  CRNKL1; crooked neck pre-mRNA splicing factor 1 [KO:K12869]
102356421  ISY1; pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
102358371  PPIL1; peptidylprolyl isomerase like 1 [KO:K12733] [EC:5.2.1.8]
102351061  PPIE; peptidylprolyl isomerase E [KO:K09564] [EC:5.2.1.8]
102365099  RBM22; RNA binding motif protein 22 [KO:K12872]
102360732  BUD31; BUD31 homolog [KO:K12873]
102352786  AQR; aquarius intron-binding spliceosomal factor [KO:K12874]
102353532  ACIN1; apoptotic chromatin condensation inducer 1 [KO:K12875]
102353141  EIF4A3; eukaryotic translation initiation factor 4A3 [KO:K13025] [EC:5.6.2.7]
102347064  RBM8A; RNA binding motif protein 8A [KO:K12876]
102348996  protein mago nashi homolog [KO:K12877]
102363272  protein mago nashi homolog [KO:K12877]
102347083  THOC1; THO complex 1 [KO:K12878]
102350789  THOC2; THO complex 2 [KO:K12879]
102345299  THOC3; THO complex 3 [KO:K12880]
102357835  ALYREF; Aly/REF export factor [KO:K12881]
102359866  NCBP1; nuclear cap binding protein subunit 1 [KO:K12882]
102362187  NCBP2; nuclear cap binding protein subunit 2 [KO:K12883]
102348342  HNRNPA3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
102363203  HNRNPA1; heterogeneous nuclear ribonucleoprotein A1 [KO:K12741]
102347437  HNRNPC; heterogeneous nuclear ribonucleoprotein C (C1/C2) [KO:K12884]
102347943  RBMX; RNA binding motif protein, X-linked [KO:K12885]
102348860  HNRNPK; heterogeneous nuclear ribonucleoprotein K [KO:K12886]
102361060  HNRNPM; heterogeneous nuclear ribonucleoprotein M [KO:K12887]
102363649  HNRNPU; heterogeneous nuclear ribonucleoprotein U [KO:K12888]
102350221  SRSF1; serine and arginine rich splicing factor 1 [KO:K12890]
102345476  SRSF2; serine and arginine rich splicing factor 2 [KO:K12891]
102360965  SRSF3; serine and arginine rich splicing factor 3 [KO:K12892]
102354399  serine/arginine-rich splicing factor 5-like [KO:K12893]
102346874  serine/arginine-rich splicing factor 5-like [KO:K12893]
102346003  serine/arginine-rich splicing factor 5-like [KO:K12893]
102346607  serine/arginine-rich splicing factor 5-like [KO:K12893]
102363480  SRSF6; serine and arginine rich splicing factor 6 [KO:K12893]
102366451  SRSF4; serine and arginine rich splicing factor 4 [KO:K12893]
102349599  serine/arginine-rich splicing factor 7-like [KO:K12896]
102347027  SRSF7; serine and arginine rich splicing factor 7 [KO:K12896]
102357925  SRSF9; serine and arginine rich splicing factor 9 [KO:K21123]
102345845  TRA2A; transformer 2 alpha homolog [KO:K12897]
102362488  TRA2B; transformer 2 beta homolog (Drosophila) [KO:K12897]
102348551  SRSF10; serine and arginine rich splicing factor 10 [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   
LinkDB

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