KEGG   PATHWAY: ctul03040
Entry
ctul03040                   Pathway                                
Name
Spliceosome - Cyprinodon tularosa (White Sands pupfish)
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
ctul03040  Spliceosome
ctul03040

Other DBs
GO: 0005681
Organism
Cyprinodon tularosa (White Sands pupfish) [GN:ctul]
Gene
119785766  U1 spliceosomal RNA [KO:K14276]
119778097  U1 spliceosomal RNA [KO:K14276]
119780541  U1 spliceosomal RNA [KO:K14276]
119785757  U2 spliceosomal RNA [KO:K14277]
119786537  U2 spliceosomal RNA [KO:K14277]
119785769  U2 spliceosomal RNA [KO:K14277]
119780409  U4 spliceosomal RNA [KO:K14278]
119780412  U4 spliceosomal RNA [KO:K14278]
119784843  U5 spliceosomal RNA [KO:K14279]
119789270  U5 spliceosomal RNA [KO:K14279]
119789272  U5 spliceosomal RNA [KO:K14279]
119791126  U5 spliceosomal RNA [KO:K14279]
119789763  U6 spliceosomal RNA [KO:K14280]
119786902  ddx46; probable ATP-dependent RNA helicase DDX46 isoform X1 [KO:K12811] [EC:5.6.2.7]
119798277  dhx16; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 [KO:K12813] [EC:5.6.2.6]
119792192  dhx38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 isoform X1 [KO:K12815] [EC:5.6.2.6]
119795942  cdc40; pre-mRNA-processing factor 17 [KO:K12816]
119793088  prpf18; pre-mRNA-splicing factor 18 isoform X1 [KO:K12817]
119791056  dhx8; ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
119792509  slu7; pre-mRNA-splicing factor SLU7 [KO:K12819]
119774731  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
119788634  snrpb; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
119795302  snrpd1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
119779172  small nuclear ribonucleoprotein Sm D1-like [KO:K11087]
119784001  snrpd2; small nuclear ribonucleoprotein Sm D2 [KO:K11096]
119772013  snrpd3l; small nuclear ribonucleoprotein D3 polypeptide, like [KO:K11088]
119779873  snrpe; small nuclear ribonucleoprotein E [KO:K11097]
119793183  snrpf; small nuclear ribonucleoprotein F [KO:K11098]
119775465  snrpg; small nuclear ribonucleoprotein G [KO:K11099]
119778541  snrnp70; U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
119797293  snrpa; U1 small nuclear ribonucleoprotein A [KO:K11091]
119779010  snrpc; U1 small nuclear ribonucleoprotein C [KO:K11095]
119783890  prpf40a; pre-mRNA-processing factor 40 homolog A [KO:K12821]
119794948  rbm25a; RNA-binding protein 25 isoform X1 [KO:K12822]
119799284  rbm25b; RNA-binding protein 25b [KO:K12822]
119797281  probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
119778684  probable ATP-dependent RNA helicase DDX5 [KO:K12823] [EC:5.6.2.7]
119792687  transcription elongation regulator 1-like isoform X1 [KO:K12824]
119771784  taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098]
119797655  snrpa1; U2 small nuclear ribonucleoprotein A' [KO:K11092]
119773868  snrpb2; U2 small nuclear ribonucleoprotein B'' [KO:K11094]
119784958  sf3a1; splicing factor 3A subunit 1 [KO:K12825]
119773334  sf3a2; splicing factor 3A subunit 2 [KO:K12826]
119777416  sf3a3; splicing factor 3A subunit 3 [KO:K12827]
119792027  sf3b1; splicing factor 3B subunit 1 isoform X1 [KO:K12828]
119787459  sf3b2; splicing factor 3B subunit 2 [KO:K12829]
119776343  sf3b3; splicing factor 3B subunit 3 [KO:K12830]
119784807  sf3b4; splicing factor 3B subunit 4 [KO:K12831]
119790558  sf3b5; splicing factor 3B subunit 5 [KO:K12832]
119798892  sf3b6; splicing factor 3B subunit 6 [KO:K12833]
119790993  phf5a; PHD finger-like domain-containing protein 5A [KO:K12834]
119783411  ddx42; ATP-dependent RNA helicase DDX42 isoform X1 [KO:K12835] [EC:5.6.2.7]
119791188  splicing factor U2AF 35 kDa subunit isoform X1 [KO:K12836]
119786355  u2af1; splicing factor U2AF 35 kDa subunit [KO:K12836]
119781920  splicing factor U2AF 65 kDa subunit-like [KO:K12837]
119783013  u2af2a; U2 small nuclear RNA auxiliary factor 2a isoform X1 [KO:K12837]
119776810  puf60a; poly(U)-binding-splicing factor PUF60a [KO:K12838]
119793407  poly(U)-binding-splicing factor PUF60-like isoform X1 [KO:K12838]
119797035  smndc1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
119794477  rbm17; splicing factor 45 isoform X1 [KO:K12840]
119772100  calcium homeostasis endoplasmic reticulum protein [KO:K12841]
119785978  U2 snRNP-associated SURP motif-containing protein [KO:K12842]
119786063  zgc:163098; U2 snRNP-associated SURP motif-containing protein isoform X1 [KO:K12842]
119785967  rp9; retinitis pigmentosa 9 protein [KO:K19604]
119795887  smx5; smx5 [KO:K12621]
119793543  lsm3; snRNA-associated Sm-like protein LSm3 [KO:K12622]
119794385  lsm4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
119796390  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
119773900  lsm6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
119798451  lsm7; U6 snRNA-associated Sm-like protein LSm7 isoform X1 [KO:K12626]
119796594  lsm8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
119783123  prpf3; U4/U6 small nuclear ribonucleoprotein Prp3 [KO:K12843]
119774447  prpf4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
119795550  ppih; peptidyl-prolyl cis-trans isomerase H [KO:K09567] [EC:5.2.1.8]
119783142  prpf31; U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
119793256  snu13b; SNU13 homolog, small nuclear ribonucleoprotein b (U4/U6.U5) [KO:K12845]
119795576  snrnp27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
119790130  usp39; U4/U6.U5 tri-snRNP-associated protein 2 [KO:K12847]
119774375  sart1; U4/U6.U5 tri-snRNP-associated protein 1 [KO:K11984]
119785697  zmat2; zinc finger matrin-type protein 2 [KO:K12848]
119780650  prpf38a; pre-mRNA-splicing factor 38A [KO:K12849]
119773036  prpf38b; pre-mRNA-splicing factor 38B isoform X1 [KO:K12850]
119783014  eftud2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
119781485  snrnp200; U5 small nuclear ribonucleoprotein 200 kDa helicase [KO:K12854] [EC:5.6.2.6]
119774113  prpf6; pre-mRNA-processing factor 6 [KO:K12855]
119782802  prpf8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
119785908  snrnp40; U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
119774119  ddx23; probable ATP-dependent RNA helicase DDX23 [KO:K12858] [EC:5.6.2.7]
119793288  txnl4a; thioredoxin-like protein 4A [KO:K12859]
119790818  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
119796171  cdc5l; cell division cycle 5-like protein [KO:K12860]
119792059  bcas2; pre-mRNA-splicing factor SPF27 [KO:K12861]
119797190  plrg1; pleiotropic regulator 1 [KO:K12862]
119789600  cwc15; protein CWC15 homolog [KO:K12863]
119796393  ctnnbl1; beta-catenin-like protein 1 [KO:K12864]
119782209  hspa1b; LOW QUALITY PROTEIN: heat shock 70 kDa protein 1B [KO:K03283]
119775534  hsc70; heat shock cognate 71 kDa protein [KO:K03283]
119795401  hspa8b; heat shock protein family A (Hsp70) member 8b [KO:K03283]
119795932  heat shock 70 kDa protein 1 [KO:K03283]
119795933  heat shock 70 kDa protein 1-like [KO:K03283]
119777618  hspa8; heat shock cognate 71 kDa protein [KO:K03283]
119778474  heat shock 70 kDa protein 1-like [KO:K03283]
119799442  pqbp1; polyglutamine-binding protein 1 isoform X1 [KO:K12865]
119797284  WW domain-binding protein 11-like [KO:K12866]
119784158  snw1; SNW domain-containing protein 1 [KO:K06063]
119785355  xab2; pre-mRNA-splicing factor SYF1 [KO:K12867]
119788425  syf2; pre-mRNA-splicing factor syf2 [KO:K12868]
119796693  crnkl1; crooked neck-like protein 1 [KO:K12869]
119794299  isy1; pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
119785256  ppil1; peptidyl-prolyl cis-trans isomerase-like 1 [KO:K12733] [EC:5.2.1.8]
119774175  ppie; peptidyl-prolyl cis-trans isomerase E [KO:K09564] [EC:5.2.1.8]
119772860  ccdc12; coiled-coil domain-containing protein 12 [KO:K12871]
119777901  rbm22; pre-mRNA-splicing factor RBM22 [KO:K12872]
119799525  bud31; protein BUD31 homolog [KO:K12873]
119774955  aqr; RNA helicase aquarius isoform X1 [KO:K12874]
119773421  acin1b; apoptotic chromatin condensation inducer 1b isoform X1 [KO:K12875]
119793336  acin1a; apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
119785553  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
119796674  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
119787623  magoh; protein mago nashi homolog [KO:K12877]
119794168  thoc1; THO complex subunit 1 [KO:K12878]
119790859  thoc2; THO complex subunit 2 isoform X1 [KO:K12879]
119784476  thoc3; THO complex subunit 3 [KO:K12880]
119781740  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
119779365  aly/REF export factor 2-like [KO:K12881]
119798724  nuclear cap-binding protein subunit 1 [KO:K12882]
119772508  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
119785046  heterogeneous nuclear ribonucleoprotein A1-like [KO:K12741]
119780247  hnrnpa3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
119787849  hnrnpc; heterogeneous nuclear ribonucleoproteins C1/C2 isoform X1 [KO:K12884]
119779310  heterogeneous nuclear ribonucleoprotein C-like isoform X1 [KO:K12884]
119786285  rbmx; RNA-binding motif protein, X chromosome [KO:K12885]
119776518  hnrpkl; heterogeneous nuclear ribonucleoprotein K, like isoform X1 [KO:K12886]
119796862  hnrnpk; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
119798461  hnrnpm; heterogeneous nuclear ribonucleoprotein M isoform X1 [KO:K12887]
119798907  hnrnpub; heterogeneous nuclear ribonucleoprotein Ub isoform X1 [KO:K12888]
119795429  srsf1a; serine/arginine-rich splicing factor 1A [KO:K12890]
119775833  srsf1b; serine/arginine-rich splicing factor 1B [KO:K12890]
119774923  srsf2a; serine and arginine rich splicing factor 2a [KO:K12891]
119784358  srsf3a; serine/arginine-rich splicing factor 3a [KO:K12892]
119780058  srsf3b; serine/arginine-rich splicing factor 3b [KO:K12892]
119789242  serine/arginine-rich splicing factor 6-like isoform X1 [KO:K12893]
119783558  srsf5a; serine and arginine rich splicing factor 5a [KO:K12893]
119778588  srsf4; serine/arginine-rich splicing factor 4 [KO:K12893]
119785632  srsf5b; serine and arginine rich splicing factor 5b [KO:K12893]
119783369  serine/arginine-rich splicing factor 7-like [KO:K12896]
119785510  serine/arginine-rich splicing factor 7-like isoform X1 [KO:K12896]
119791012  srsf9; serine/arginine-rich splicing factor 9 [KO:K21123]
119775420  transformer-2 protein homolog alpha-like isoform X1 [KO:K12897]
119783889  tra2b; transformer-2 protein homolog beta isoform X1 [KO:K12897]
119790501  serine/arginine-rich splicing factor 10-like [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

DBGET integrated database retrieval system