KEGG   PATHWAY: gaf03040
Entry
gaf03040                    Pathway                                
Name
Spliceosome - Gambusia affinis (western mosquitofish)
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
gaf03040  Spliceosome
gaf03040

Other DBs
GO: 0005681
Organism
Gambusia affinis (western mosquitofish) [GN:gaf]
Gene
122833332  U1 spliceosomal RNA [KO:K14276]
122833334  U1 spliceosomal RNA [KO:K14276]
122833335  U1 spliceosomal RNA [KO:K14276]
122819765  U2 spliceosomal RNA [KO:K14277]
122834781  U2 spliceosomal RNA [KO:K14277]
122836353  U4 spliceosomal RNA [KO:K14278]
122836356  U4 spliceosomal RNA [KO:K14278]
122836354  U4 spliceosomal RNA [KO:K14278]
122836357  U4 spliceosomal RNA [KO:K14278]
122840545  U5 spliceosomal RNA [KO:K14279]
122840477  U5 spliceosomal RNA [KO:K14279]
122823830  U5 spliceosomal RNA [KO:K14279]
122840540  U5 spliceosomal RNA [KO:K14279]
122845483  U5 spliceosomal RNA [KO:K14279]
122845479  U5 spliceosomal RNA [KO:K14279]
122845478  U5 spliceosomal RNA [KO:K14279]
122836368  U6 spliceosomal RNA [KO:K14280]
122823833  U6 spliceosomal RNA [KO:K14280]
122836361  U6 spliceosomal RNA [KO:K14280]
122845263  ddx46; probable ATP-dependent RNA helicase DDX46 isoform X1 [KO:K12811] [EC:5.6.2.7]
122831871  dhx16; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 [KO:K12813] [EC:5.6.2.6]
122845624  dhx38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 [KO:K12815] [EC:5.6.2.6]
122825048  cdc40; pre-mRNA-processing factor 17 [KO:K12816]
122835586  prpf18; pre-mRNA-splicing factor 18 isoform X1 [KO:K12817]
122823434  dhx8; ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
122837390  slu7; pre-mRNA-splicing factor SLU7 [KO:K12819]
122820166  dhx15; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
122829418  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15-like [KO:K12820] [EC:5.6.2.6]
122833933  snrpb; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
122843623  snrpd1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
122832609  snrpd2; small nuclear ribonucleoprotein Sm D2 [KO:K11096]
122847277  snrpd3l; small nuclear ribonucleoprotein D3 polypeptide, like [KO:K11088]
122834163  snrpe; small nuclear ribonucleoprotein E [KO:K11097]
122826232  snrpf; small nuclear ribonucleoprotein F [KO:K11098]
122836692  snrpg; small nuclear ribonucleoprotein G [KO:K11099]
122822579  snrnp70; U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
122832970  snrpa; U1 small nuclear ribonucleoprotein A [KO:K11091]
122833476  snrpc; U1 small nuclear ribonucleoprotein C [KO:K11095]
122840356  prpf40a; pre-mRNA-processing factor 40 homolog A [KO:K12821]
122846472  rbm25a; RNA-binding protein 25 [KO:K12822]
122825715  rbm25b; RNA-binding protein 25b isoform X1 [KO:K12822]
122830238  probable ATP-dependent RNA helicase DDX5 [KO:K12823] [EC:5.6.2.7]
122822118  ddx5; probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
122844559  tcerg1b; transcription elongation regulator 1 isoform X1 [KO:K12824]
122832934  taf15; TATA-binding protein-associated factor 2N [KO:K13098]
122846890  snrpa1; U2 small nuclear ribonucleoprotein A' [KO:K11092]
122828962  snrpb2; U2 small nuclear ribonucleoprotein B'' isoform X1 [KO:K11094]
122827819  sf3a1; splicing factor 3A subunit 1 isoform X1 [KO:K12825]
122840977  sf3a2; splicing factor 3A subunit 2 [KO:K12826]
122843606  sf3a3; splicing factor 3A subunit 3 [KO:K12827]
122839513  sf3b1; LOW QUALITY PROTEIN: splicing factor 3B subunit 1 [KO:K12828]
122820132  sf3b2; splicing factor 3B subunit 2 [KO:K12829]
122836136  sf3b3; splicing factor 3B subunit 3 [KO:K12830]
122844188  sf3b4; splicing factor 3B subunit 4 [KO:K12831]
122842101  sf3b5; splicing factor 3B subunit 5 [KO:K12832]
122825354  sf3b6; splicing factor 3B subunit 6 [KO:K12833]
122823182  phf5a; PHD finger-like domain-containing protein 5A [KO:K12834]
122821887  ddx42; ATP-dependent RNA helicase DDX42 [KO:K12835] [EC:5.6.2.7]
122827004  splicing factor U2AF 35 kDa subunit isoform X1 [KO:K12836]
122839402  u2af1; splicing factor U2AF 35 kDa subunit [KO:K12836]
122830517  u2af2a; U2 small nuclear RNA auxiliary factor 2a isoform X1 [KO:K12837]
122822035  splicing factor U2AF 65 kDa subunit-like [KO:K12837]
122841518  puf60a; poly(U)-binding-splicing factor PUF60a isoform X1 [KO:K12838]
122824208  poly(U)-binding-splicing factor PUF60-like isoform X1 [KO:K12838]
122842538  smndc1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
122826258  rbm17; splicing factor 45 [KO:K12840]
122838347  calcium homeostasis endoplasmic reticulum protein isoform X1 [KO:K12841]
122845090  zgc:163098; U2 snRNP-associated SURP motif-containing protein isoform X1 [KO:K12842]
122824525  U2 snRNP-associated SURP motif-containing protein isoform X1 [KO:K12842]
122843694  rp9; retinitis pigmentosa 9 protein [KO:K19604]
122838281  smx5; smx5 [KO:K12621]
122834027  lsm3; snRNA-associated Sm-like protein LSm3 [KO:K12622]
122839118  lsm4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
122824482  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
122829812  U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
122829814  U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
122838637  lsm7; U6 snRNA-associated Sm-like protein LSm7 isoform X1 [KO:K12626]
122826531  lsm8; LSM8 homolog, U6 small nuclear RNA associated isoform X1 [KO:K12627]
122830581  prpf3; U4/U6 small nuclear ribonucleoprotein Prp3 isoform X1 [KO:K12843]
122819759  prpf4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
122839735  ppih; peptidyl-prolyl cis-trans isomerase H isoform X1 [KO:K09567] [EC:5.2.1.8]
122830549  prpf31; U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
122823723  NHP2-like protein 1 [KO:K12845]
122828444  snrnp27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
122828332  usp39; U4/U6.U5 tri-snRNP-associated protein 2 isoform X1 [KO:K12847]
122830169  sart1; U4/U6.U5 tri-snRNP-associated protein 1 [KO:K11984]
122845433  zmat2; zinc finger matrin-type protein 2 [KO:K12848]
122838105  prpf38a; pre-mRNA-splicing factor 38A [KO:K12849]
122841008  prpf38b; pre-mRNA-splicing factor 38B isoform X1 [KO:K12850]
122822548  eftud2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
122827878  snrnp200; U5 small nuclear ribonucleoprotein 200 kDa helicase [KO:K12854] [EC:5.6.2.6]
122829838  prpf6; pre-mRNA-processing factor 6 [KO:K12855]
122833162  prpf8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
122843672  snrnp40; U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
122839076  ddx23; probable ATP-dependent RNA helicase DDX23 [KO:K12858] [EC:5.6.2.7]
122843936  txnl4a; thioredoxin-like protein 4A [KO:K12859]
122837631  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
122842719  cdc5l; cell division cycle 5-like protein isoform X1 [KO:K12860]
122840366  bcas2; pre-mRNA-splicing factor SPF27 [KO:K12861]
122829455  plrg1; pleiotropic regulator 1 isoform X1 [KO:K12862]
122845006  cwc15; protein CWC15 homolog [KO:K12863]
122833056  ctnnbl1; beta-catenin-like protein 1 [KO:K12864]
122837131  hspa1b; heat shock 70 kDa protein-like [KO:K03283]
122845062  hspa8; heat shock cognate 71 kDa protein [KO:K03283]
122831349  hsc70; heat shock cognate 71 kDa protein [KO:K03283]
122832704  hspa8b; heat shock protein family A (Hsp70) member 8b [KO:K03283]
122821641  heat shock 70 kDa protein 1 [KO:K03283]
122828981  pqbp1; polyglutamine-binding protein 1 [KO:K12865]
122822121  WW domain-binding protein 11 [KO:K12866]
122825043  snw1; SNW domain-containing protein 1 [KO:K06063]
122821571  xab2; pre-mRNA-splicing factor SYF1 isoform X1 [KO:K12867]
122845659  syf2; pre-mRNA-splicing factor syf2 [KO:K12868]
122825554  crnkl1; crooked neck-like protein 1 isoform X1 [KO:K12869]
122834673  isy1; pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
122834099  ppil1; peptidyl-prolyl cis-trans isomerase-like 1 [KO:K12733] [EC:5.2.1.8]
122846394  ppie; peptidyl-prolyl cis-trans isomerase E [KO:K09564] [EC:5.2.1.8]
122831471  ccdc12; coiled-coil domain-containing protein 12 [KO:K12871]
122837597  rbm22; pre-mRNA-splicing factor RBM22 [KO:K12872]
122822204  bud31; protein BUD31 homolog [KO:K12873]
122846370  aqr; RNA helicase aquarius isoform X1 [KO:K12874]
122820057  acin1b; apoptotic chromatin condensation inducer 1b [KO:K12875]
122840718  acin1a; apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
122829979  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
122830645  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
122839082  magoh; protein mago nashi homolog isoform X1 [KO:K12877]
122841162  thoc1; THO complex subunit 1 isoform X1 [KO:K12878]
122844623  thoc2; THO complex subunit 2 isoform X1 [KO:K12879]
122836995  thoc3; THO complex subunit 3 [KO:K12880]
122822318  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
122829050  aly/REF export factor 2-like [KO:K12881]
122837052  nuclear cap-binding protein subunit 1 [KO:K12882]
122838517  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
122828253  hnrnpa1b; heterogeneous nuclear ribonucleoprotein A1b isoform X1 [KO:K12741]
122840383  hnrnpa3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
122820790  heterogeneous nuclear ribonucleoproteins C1/C2 isoform X1 [KO:K12884]
122840905  heterogeneous nuclear ribonucleoproteins C1/C2 isoform X1 [KO:K12884]
122837359  rbmx; RNA-binding motif protein, X chromosome [KO:K12885]
122846829  hnrpkl; heterogeneous nuclear ribonucleoprotein K, like isoform X1 [KO:K12886]
122828074  hnrnpk; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
122838643  hnrnpm; heterogeneous nuclear ribonucleoprotein M isoform X1 [KO:K12887]
122825365  hnrnpub; heterogeneous nuclear ribonucleoprotein Ub [KO:K12888]
122844400  srsf1b; serine/arginine-rich splicing factor 1B [KO:K12890]
122833154  srsf1a; LOW QUALITY PROTEIN: serine/arginine-rich splicing factor 1A [KO:K12890]
122822719  srsf2a; serine and arginine rich splicing factor 2a [KO:K12891]
122833559  srsf3a; serine/arginine-rich splicing factor 3a [KO:K12892]
122834622  srsf3b; serine/arginine-rich splicing factor 3b [KO:K12892]
122845829  srsf5a; serine and arginine rich splicing factor 5a [KO:K12893]
122824895  srsf5b; serine and arginine rich splicing factor 5b [KO:K12893]
122840041  serine/arginine-rich splicing factor 6-like [KO:K12893]
122843805  srsf4; serine/arginine-rich splicing factor 4 [KO:K12893]
122832853  srsf7a; serine and arginine rich splicing factor 7a isoform X1 [KO:K12896]
122847161  srsf9; serine/arginine-rich splicing factor 9 [KO:K21123]
122846266  transformer-2 protein homolog alpha-like isoform X1 [KO:K12897]
122840300  tra2b; transformer-2 protein homolog beta isoform X1 [KO:K12897]
122843163  serine/arginine-rich splicing factor 10-like isoform X1 [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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