KEGG   PATHWAY: csem03040
Entry
csem03040                   Pathway                                
Name
Spliceosome - Cynoglossus semilaevis (tongue sole)
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
csem03040  Spliceosome
csem03040

Other DBs
GO: 0005681
Organism
Cynoglossus semilaevis (tongue sole) [GN:csem]
Gene
103394945  ddx46; probable ATP-dependent RNA helicase DDX46 [KO:K12811] [EC:5.6.2.7]
103388837  dhx16; putative pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 [KO:K12813] [EC:5.6.2.6]
103398425  dhx38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 isoform X1 [KO:K12815] [EC:5.6.2.6]
103380862  cdc40; pre-mRNA-processing factor 17 [KO:K12816]
103380125  prpf18; pre-mRNA-splicing factor 18 isoform X1 [KO:K12817]
103381856  ATP-dependent RNA helicase DHX8 isoform X1 [KO:K12818] [EC:5.6.2.6]
103381857  ATP-dependent RNA helicase DHX8-like isoform X2 [KO:K12818] [EC:5.6.2.6]
103391205  slu7; pre-mRNA-splicing factor SLU7 [KO:K12819]
103383656  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
103390531  dhx15; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 isoform X1 [KO:K12820] [EC:5.6.2.6]
103386822  snrpb; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
103394437  snrpd1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
103377623  snrpd2; small nuclear ribonucleoprotein Sm D2 [KO:K11096]
103389391  snrpd3; small nuclear ribonucleoprotein Sm D3 [KO:K11088]
103386294  snrpe; small nuclear ribonucleoprotein E [KO:K11097]
103382608  snrpf; small nuclear ribonucleoprotein F [KO:K11098]
103384709  snrpg; small nuclear ribonucleoprotein G [KO:K11099]
103393493  snrnp70; U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
103378446  snrpa; U1 small nuclear ribonucleoprotein A [KO:K11091]
103386598  snrpc; U1 small nuclear ribonucleoprotein C [KO:K11095]
103392193  prpf40a; LOW QUALITY PROTEIN: pre-mRNA-processing factor 40 homolog A [KO:K12821]
103381306  RNA-binding protein 25-like [KO:K12822]
103380890  RNA-binding protein 25-like [KO:K12822]
103383782  probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
103393708  probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
103395450  tcerg1; transcription elongation regulator 1 isoform X1 [KO:K12824]
103379037  U2 small nuclear ribonucleoprotein A'-like [KO:K11092]
103383391  snrpb2; U2 small nuclear ribonucleoprotein B'' [KO:K11094]
103396919  splicing factor 3A subunit 1-like [KO:K12825]
103398042  sf3a1; splicing factor 3A subunit 1 [KO:K12825]
103395945  sf3a2; splicing factor 3A subunit 2 [KO:K12826]
103394705  sf3a3; splicing factor 3A subunit 3 [KO:K12827]
103391643  sf3b1; splicing factor 3B subunit 1 isoform X1 [KO:K12828]
103386046  sf3b2; LOW QUALITY PROTEIN: splicing factor 3B subunit 2 [KO:K12829]
103379502  sf3b3; splicing factor 3B subunit 3 [KO:K12830]
103394266  sf3b4; splicing factor 3B subunit 4 [KO:K12831]
103387080  sf3b5; splicing factor 3B subunit 5 [KO:K12832]
103380723  sf3b6; splicing factor 3B subunit 6 [KO:K12833]
103382150  phf5a; PHD finger-like domain-containing protein 5A [KO:K12834]
103392660  ddx42; ATP-dependent RNA helicase DDX42 isoform X2 [KO:K12835] [EC:5.6.2.7]
103389252  splicing factor U2AF 35 kDa subunit isoform X1 [KO:K12836]
103391595  splicing factor U2AF 35 kDa subunit-like [KO:K12836]
103387861  splicing factor U2AF 65 kDa subunit-like [KO:K12837]
103392513  splicing factor U2AF 65 kDa subunit-like [KO:K12837]
103377409  poly(U)-binding-splicing factor PUF60-like isoform X2 [KO:K12838]
103398733  poly(U)-binding-splicing factor PUF60-like [KO:K12838]
103387644  smndc1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
103383117  rbm17; splicing factor 45 isoform X1 [KO:K12840]
103396857  cherp; calcium homeostasis endoplasmic reticulum protein isoform X1 [KO:K12841]
103377160  u2surp; U2 snRNP-associated SURP motif-containing protein isoform X1 [KO:K12842]
103395556  U2 snRNP-associated SURP motif-containing protein-like [KO:K12842]
103394595  rp9; retinitis pigmentosa 9 protein [KO:K19604]
103399951  lsm2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
103386519  lsm3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
103394678  lsm4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
103377155  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
103383349  lsm6; U6 snRNA-associated Sm-like protein LSm6 isoform X1 [KO:K12625]
103393874  lsm7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
103382508  lsm8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
103388241  prpf3; U4/U6 small nuclear ribonucleoprotein Prp3 [KO:K12843]
103390358  prpf4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
103384481  ppih; peptidyl-prolyl cis-trans isomerase H [KO:K09567] [EC:5.2.1.8]
103387856  prpf31; U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
103382356  snu13; NHP2-like protein 1 [KO:K12845]
103397464  snrnp27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
103383469  sart1; U4/U6.U5 tri-snRNP-associated protein 1 [KO:K11984]
103395665  zmat2; zinc finger matrin-type protein 2 [KO:K12848]
103399444  prpf38a; pre-mRNA-splicing factor 38A [KO:K12849]
103395982  pre-mRNA-splicing factor 38B isoform X2 [KO:K12850]
103393137  eftud2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
103397587  snrnp200; U5 small nuclear ribonucleoprotein 200 kDa helicase isoform X1 [KO:K12854] [EC:5.6.2.6]
103384434  prpf6; LOW QUALITY PROTEIN: pre-mRNA-processing factor 6 [KO:K12855]
103378069  prpf8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
103394346  snrnp40; U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
103385412  ddx23; probable ATP-dependent RNA helicase DDX23 isoform X1 [KO:K12858] [EC:5.6.2.7]
103394670  txnl4a; thioredoxin-like protein 4A [KO:K12859]
103390974  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
103387747  cdc5l; cell division cycle 5-like protein [KO:K12860]
103384908  bcas2; pre-mRNA-splicing factor SPF27 [KO:K12861]
103383609  plrg1; pleiotropic regulator 1 [KO:K12862]
103395433  cwc15; spliceosome-associated protein CWC15 homolog [KO:K12863]
103384740  ctnnbl1; beta-catenin-like protein 1 [KO:K12864]
103378288  heat shock cognate 70 kDa protein-like [KO:K03283]
103388515  heat shock cognate 71 kDa protein-like [KO:K03283]
103395051  LOW QUALITY PROTEIN: heat shock cognate 71 kDa protein [KO:K03283]
103395053  heat shock cognate 70 kDa protein [KO:K03283]
103393458  heat shock 70 kDa protein 1 [KO:K03283]
103385388  pqbp1; polyglutamine-binding protein 1 [KO:K12865]
103393390  wbp11; LOW QUALITY PROTEIN: WW domain-binding protein 11 [KO:K12866]
103380701  snw1; SNW domain-containing protein 1 isoform X1 [KO:K06063]
103392861  xab2; pre-mRNA-splicing factor SYF1 [KO:K12867]
103382054  syf2; pre-mRNA-splicing factor SYF2 [KO:K12868]
103381317  crnkl1; crooked neck-like protein 1 [KO:K12869]
103386836  pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
103399576  pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
103385759  ppil1; peptidyl-prolyl cis-trans isomerase-like 1 [KO:K12733] [EC:5.2.1.8]
103382353  ppie; peptidyl-prolyl cis-trans isomerase E [KO:K09564] [EC:5.2.1.8]
103388380  ccdc12; coiled-coil domain-containing protein 12 [KO:K12871]
103390996  rbm22; pre-mRNA-splicing factor RBM22 [KO:K12872]
103393336  bud31; protein BUD31 homolog [KO:K12873]
103379690  aqr; intron-binding protein aquarius isoform X1 [KO:K12874]
103388655  apoptotic chromatin condensation inducer in the nucleus-like [KO:K12875]
103388267  apoptotic chromatin condensation inducer in the nucleus-like isoform X1 [KO:K12875]
103396595  acin1; apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
103383295  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
103388815  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
103398745  magoh; protein mago nashi homolog [KO:K12877]
103396391  thoc1; THO complex subunit 1 [KO:K12878]
103395544  thoc2; THO complex subunit 2 [KO:K12879]
103391087  thoc3; THO complex subunit 3 [KO:K12880]
103384291  alyref; THO complex subunit 4 isoform X1 [KO:K12881]
103393202  THO complex subunit 4-like [KO:K12881]
103391063  ncbp1; nuclear cap-binding protein subunit 1 [KO:K12882]
103396342  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
103385130  heterogeneous nuclear ribonucleoprotein A1 [KO:K12741]
103391872  hnrnpa3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
103396711  heterogeneous nuclear ribonucleoprotein C-like [KO:K12884]
103385815  heterogeneous nuclear ribonucleoprotein C [KO:K12884]
103390774  rbmx; RNA-binding motif protein, X chromosome isoform X2 [KO:K12885]
103390422  heterogeneous nuclear ribonucleoprotein K-like isoform X2 [KO:K12886]
103397093  heterogeneous nuclear ribonucleoprotein K-like isoform X1 [KO:K12886]
103398157  hnrnpk; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
103393912  hnrnpm; heterogeneous nuclear ribonucleoprotein M isoform X1 [KO:K12887]
103398516  hnrnpu; heterogeneous nuclear ribonucleoprotein U [KO:K12888]
103378294  serine/arginine-rich splicing factor 1B [KO:K12890]
103395123  serine/arginine-rich splicing factor 1 [KO:K12890]
103381780  srsf2; serine/arginine-rich splicing factor 2 [KO:K12891]
103385881  srsf3; serine/arginine-rich splicing factor 3 isoform X1 [KO:K12892]
103385776  serine/arginine-rich splicing factor 3-like isoform X1 [KO:K12892]
103381207  serine/arginine-rich splicing factor 5-like [KO:K12893]
103381036  srsf5; serine/arginine-rich splicing factor 5 [KO:K12893]
103384514  srsf6; serine/arginine-rich splicing factor 6 isoform X1 [KO:K12893]
103393948  serine/arginine-rich splicing factor 6-like isoform X1 [KO:K12893]
103377922  srsf7; serine/arginine-rich splicing factor 7 [KO:K12896]
103390134  serine/arginine-rich splicing factor 9-like [KO:K21123]
103378456  transformer-2 protein homolog beta-like isoform X1 [KO:K12897]
103394130  tra2a; transformer-2 protein homolog alpha isoform X1 [KO:K12897]
103392200  tra2b; transformer-2 protein homolog beta isoform X1 [KO:K12897]
103393916  srsf10; serine/arginine-rich splicing factor 10 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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