KEGG   PATHWAY: hsp03040
Entry
hsp03040                    Pathway                                
Name
Spliceosome - Hippoglossus stenolepis (Pacific halibut)
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
hsp03040  Spliceosome
hsp03040

Other DBs
GO: 0005681
Organism
Hippoglossus stenolepis (Pacific halibut) [GN:hsp]
Gene
124851506  U1 spliceosomal RNA [KO:K14276]
118108368  U1 spliceosomal RNA [KO:K14276]
118104083  U1 spliceosomal RNA [KO:K14276]
124854118  U2 spliceosomal RNA [KO:K14277]
124852737  U2 spliceosomal RNA [KO:K14277]
124854231  U2 spliceosomal RNA [KO:K14277]
124854109  U2 spliceosomal RNA [KO:K14277]
124854336  U2 spliceosomal RNA [KO:K14277]
124852809  U2 spliceosomal RNA [KO:K14277]
124852978  U2 spliceosomal RNA [KO:K14277]
124852881  U2 spliceosomal RNA [KO:K14277]
124852686  U2 spliceosomal RNA [KO:K14277]
124854284  U2 spliceosomal RNA [KO:K14277]
124854308  U2 spliceosomal RNA [KO:K14277]
124852942  U2 spliceosomal RNA [KO:K14277]
124853463  U2 spliceosomal RNA [KO:K14277]
124854370  U2 spliceosomal RNA [KO:K14277]
118108378  U2 spliceosomal RNA [KO:K14277]
118110286  U4 spliceosomal RNA [KO:K14278]
118110291  U4 spliceosomal RNA [KO:K14278]
124853456  U5 spliceosomal RNA [KO:K14279]
124853270  U5 spliceosomal RNA [KO:K14279]
118111695  U5 spliceosomal RNA [KO:K14279]
118101143  U5 spliceosomal RNA [KO:K14279]
118122157  ddx46; probable ATP-dependent RNA helicase DDX46 [KO:K12811] [EC:5.6.2.7]
118113925  dhx16; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 [KO:K12813] [EC:5.6.2.6]
118110279  dhx38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 isoform X1 [KO:K12815] [EC:5.6.2.6]
118099138  cdc40; pre-mRNA-processing factor 17 [KO:K12816]
118109355  prpf18; pre-mRNA-splicing factor 18 isoform X1 [KO:K12817]
118100178  ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
118100179  ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
118112619  pre-mRNA-splicing factor SLU7-like [KO:K12819]
118112384  pre-mRNA-splicing factor SLU7-like [KO:K12819]
118102626  dhx15; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
118119303  ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
118104413  snrpb; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
118124379  snrpd1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
118106682  snrpd2; small nuclear ribonucleoprotein Sm D2 [KO:K11096]
118125550  snrpd3l; small nuclear ribonucleoprotein D3 polypeptide, like [KO:K11088]
118104535  snrpe; small nuclear ribonucleoprotein E [KO:K11097]
118101547  snrpf; small nuclear ribonucleoprotein F [KO:K11098]
118111634  snrpg; small nuclear ribonucleoprotein G [KO:K11099]
118123708  snrnp70; U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
118106653  snrpa; U1 small nuclear ribonucleoprotein A [KO:K11091]
118104423  snrpc; U1 small nuclear ribonucleoprotein C [KO:K11095]
118120249  prpf40a; pre-mRNA-processing factor 40 homolog A isoform X1 [KO:K12821]
118116321  rbm25a; RNA-binding protein 25 isoform X1 [KO:K12822]
118099912  rbm25b; RNA-binding protein 25b isoform X1 [KO:K12822]
118123238  ddx5; probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
118119975  probable ATP-dependent RNA helicase DDX5 [KO:K12823] [EC:5.6.2.7]
118122350  transcription elongation regulator 1 isoform X1 [KO:K12824]
118105922  taf15; TATA-binding protein-associated factor 2N isoform X1 [KO:K13098]
118123955  fus; LOW QUALITY PROTEIN: RNA-binding protein FUS [KO:K13098]
118110885  snrpa1; U2 small nuclear ribonucleoprotein A' isoform X1 [KO:K11092]
118116503  snrpb2; U2 small nuclear ribonucleoprotein B'' isoform X1 [KO:K11094]
118114873  sf3a1; splicing factor 3A subunit 1 [KO:K12825]
118118256  sf3a2; splicing factor 3A subunit 2 [KO:K12826]
118124727  sf3a3; splicing factor 3A subunit 3 [KO:K12827]
118119729  sf3b1; splicing factor 3B subunit 1 isoform X1 [KO:K12828]
118102853  sf3b2; splicing factor 3B subunit 2 [KO:K12829]
118109803  sf3b3; splicing factor 3B subunit 3 [KO:K12830]
118125312  sf3b4; splicing factor 3B subunit 4 [KO:K12831]
118119497  sf3b5; splicing factor 3B subunit 5 [KO:K12832]
118099897  sf3b6; splicing factor 3B subunit 6 [KO:K12833]
118100336  phf5a; PHD finger-like domain-containing protein 5A [KO:K12834]
118123017  ddx42; ATP-dependent RNA helicase DDX42 [KO:K12835] [EC:5.6.2.7]
118119677  u2af1; splicing factor U2AF 35 kDa subunit [KO:K12836]
118103611  splicing factor U2AF 35 kDa subunit isoform X1 [KO:K12836]
118122962  splicing factor U2AF 65 kDa subunit isoform X1 [KO:K12837]
118113197  u2af2a; U2 small nuclear RNA auxiliary factor 2a isoform X1 [KO:K12837]
118098490  puf60b; poly(U)-binding-splicing factor PUF60-B isoform X1 [KO:K12838]
118117461  puf60a; poly(U)-binding-splicing factor PUF60a isoform X1 [KO:K12838]
118119025  smndc1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
118101937  rbm17; splicing factor 45 [KO:K12840]
118121311  calcium homeostasis endoplasmic reticulum protein isoform X1 [KO:K12841]
118098687  U2 snRNP-associated SURP motif-containing protein isoform X2 [KO:K12842]
118122299  zgc:163098; U2 snRNP-associated SURP motif-containing protein [KO:K12842]
118125082  rp9; retinitis pigmentosa 9 protein [KO:K19604]
118120910  smx5; smx5 [KO:K12621]
118105278  lsm3; snRNA-associated Sm-like protein LSm3 [KO:K12622]
118121470  lsm4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
118098449  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
118116840  lsm6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
118121139  lsm7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
118102014  lsm8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
118114008  prpf3; U4/U6 small nuclear ribonucleoprotein Prp3 [KO:K12843]
118125584  prpf4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
118111420  ppih; peptidyl-prolyl cis-trans isomerase H [KO:K09567] [EC:5.2.1.8]
118113598  prpf31; U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
118101077  snu13b; SNU13 homolog, small nuclear ribonucleoprotein b (U4/U6.U5) [KO:K12845]
118115588  snrnp27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
118114986  usp39; U4/U6.U5 tri-snRNP-associated protein 2 [KO:K12847]
118120870  sart1; U4/U6.U5 tri-snRNP-associated protein 1 [KO:K11984]
124854906  zmat2; zinc finger matrin-type protein 2 [KO:K12848]
118121294  prpf38a; pre-mRNA-splicing factor 38A isoform X1 [KO:K12849]
118117940  prpf38b; pre-mRNA-splicing factor 38B isoform X1 [KO:K12850]
118122934  eftud2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
118115352  snrnp200; U5 small nuclear ribonucleoprotein 200 kDa helicase [KO:K12854] [EC:5.6.2.6]
118111288  prpf6; pre-mRNA-processing factor 6 [KO:K12855]
118105797  prpf8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
118124545  snrnp40; U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
118110501  ddx23; probable ATP-dependent RNA helicase DDX23 [KO:K12858] [EC:5.6.2.7]
118124787  txnl4a; thioredoxin-like protein 4A [KO:K12859]
118112616  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
118119245  cdc5l; cell division cycle 5-like protein [KO:K12860]
118111555  bcas2; pre-mRNA-splicing factor SPF27 [KO:K12861]
118123755  plrg1; pleiotropic regulator 1 [KO:K12862]
118122695  cwc15; protein CWC15 homolog [KO:K12863]
118110971  ctnnbl1; beta-catenin-like protein 1 [KO:K12864]
118121919  heat shock cognate 71 kDa protein [KO:K03283]
118121978  heat shock cognate 71 kDa protein [KO:K03283]
118110396  LOW QUALITY PROTEIN: heat shock 70 kDa protein [KO:K03283]
118110398  LOW QUALITY PROTEIN: heat shock 70 kDa protein [KO:K03283]
118111103  LOW QUALITY PROTEIN: heat shock 70 kDa protein [KO:K03283]
118113603  heat shock cognate 71 kDa protein [KO:K03283]
118125940  heat shock cognate 70 kDa protein [KO:K03283]
118110977  pqbp1; polyglutamine-binding protein 1 isoform X1 [KO:K12865]
118123163  LOW QUALITY PROTEIN: WW domain-binding protein 11 [KO:K12866]
118099682  snw1; SNW domain-containing protein 1 [KO:K06063]
118123741  xab2; pre-mRNA-splicing factor SYF1 [KO:K12867]
118116178  syf2; pre-mRNA-splicing factor syf2 [KO:K12868]
118099547  crnkl1; crooked neck-like protein 1 [KO:K12869]
118105481  isy1; pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
118105189  ppil1; peptidyl-prolyl cis-trans isomerase-like 1 [KO:K12733] [EC:5.2.1.8]
118117004  ppie; peptidyl-prolyl cis-trans isomerase E [KO:K09564] [EC:5.2.1.8]
118113862  ccdc12; coiled-coil domain-containing protein 12 [KO:K12871]
118112189  rbm22; pre-mRNA-splicing factor RBM22 [KO:K12872]
118112705  pre-mRNA-splicing factor RBM22 [KO:K12872]
118123264  bud31; protein BUD31 homolog [KO:K12873]
118115890  aqr; RNA helicase aquarius isoform X1 [KO:K12874]
118117332  acin1a; apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
118102823  acin1b; apoptotic chromatin condensation inducer 1b [KO:K12875]
118119523  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
118114272  rbm8a; RNA-binding protein 8A [KO:K12876]
118120715  magoh; protein mago nashi homolog [KO:K12877]
118117799  thoc1; THO complex subunit 1 [KO:K12878]
118122166  thoc2; THO complex subunit 2 isoform X1 [KO:K12879]
118112732  thoc3; THO complex subunit 3 [KO:K12880]
118100416  THO complex subunit 4 [KO:K12881]
118123019  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
118112277  nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
118121558  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
118110738  hnrnpa1b; heterogeneous nuclear ribonucleoprotein A1b isoform X1 [KO:K12741]
118119832  hnrnpa3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
118117555  heterogeneous nuclear ribonucleoprotein C isoform X1 [KO:K12884]
118102751  hnrnpc; heterogeneous nuclear ribonucleoproteins C1/C2 isoform X1 [KO:K12884]
118112285  rbmx; RNA-binding motif protein, X chromosome [KO:K12885]
118114780  hnrnpk; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
118125519  hnrpkl; heterogeneous nuclear ribonucleoprotein K, like isoform X1 [KO:K12886]
118120918  hnrnpm; heterogeneous nuclear ribonucleoprotein M isoform X1 [KO:K12887]
118099316  hnrnpub; heterogeneous nuclear ribonucleoprotein Ub [KO:K12888]
118106471  srsf1a; serine/arginine-rich splicing factor 1A isoform X1 [KO:K12890]
118122295  serine/arginine-rich splicing factor 1 [KO:K12890]
118100431  srsf2a; serine and arginine rich splicing factor 2a [KO:K12891]
118123970  srsf2b; serine/arginine-rich splicing factor 2b isoform X1 [KO:K12891]
118104425  srsf3b; serine/arginine-rich splicing factor 3b [KO:K12892]
118104615  srsf3a; serine/arginine-rich splicing factor 3a [KO:K12892]
118099470  srsf5b; serine and arginine rich splicing factor 5b [KO:K12893]
118116116  srsf5a; serine and arginine rich splicing factor 5a [KO:K12893]
118110712  srsf6a; serine and arginine rich splicing factor 6a [KO:K12893]
118104941  serine/arginine-rich splicing factor 6 isoform X1 [KO:K12893]
118125256  serine/arginine-rich splicing factor 6 isoform X1 [KO:K12893]
118106188  srsf7a; serine and arginine rich splicing factor 7a [KO:K12896]
118125785  srsf9; serine/arginine-rich splicing factor 9 [KO:K21123]
118115895  transformer-2 protein homolog alpha [KO:K12897]
118120017  tra2b; transformer-2 protein homolog beta isoform X1 [KO:K12897]
118124693  tra2a; transformer-2 protein homolog alpha isoform X1 [KO:K12897]
118113395  srsf10a; serine/arginine-rich splicing factor 10 isoform X1 [KO:K12900]
118124658  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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