KEGG   PATHWAY: pflv03040
Entry
pflv03040                   Pathway                                
Name
Spliceosome - Perca flavescens (yellow perch)
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
pflv03040  Spliceosome
pflv03040

Other DBs
GO: 0005681
Organism
Perca flavescens (yellow perch) [GN:pflv]
Gene
114548730  U1 spliceosomal RNA [KO:K14276]
114546247  U1 spliceosomal RNA [KO:K14276]
114548747  U1 spliceosomal RNA [KO:K14276]
114552077  U2 spliceosomal RNA [KO:K14277]
114567411  U2 spliceosomal RNA [KO:K14277]
114553400  U2 spliceosomal RNA [KO:K14277]
114553409  U2 spliceosomal RNA [KO:K14277]
114552078  U2 spliceosomal RNA [KO:K14277]
114552089  U2 spliceosomal RNA [KO:K14277]
114573794  U2 spliceosomal RNA [KO:K14277]
114546259  U2 spliceosomal RNA [KO:K14277]
114560875  U4 spliceosomal RNA [KO:K14278]
114573775  U4 spliceosomal RNA [KO:K14278]
114573771  U4 spliceosomal RNA [KO:K14278]
114552090  U5 spliceosomal RNA [KO:K14279]
114567421  U5 spliceosomal RNA [KO:K14279]
114548743  U5 spliceosomal RNA [KO:K14279]
114559475  U5 spliceosomal RNA [KO:K14279]
114553411  U6 spliceosomal RNA [KO:K14280]
114567080  ddx46; probable ATP-dependent RNA helicase DDX46 isoform X1 [KO:K12811] [EC:5.6.2.7]
114557402  dhx16; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 [KO:K12813] [EC:5.6.2.6]
114555372  dhx38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 isoform X1 [KO:K12815] [EC:5.6.2.6]
114573633  cdc40; pre-mRNA-processing factor 17 [KO:K12816]
114560184  prpf18; pre-mRNA-splicing factor 18 isoform X1 [KO:K12817]
114547649  ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
114548548  ATP-dependent RNA helicase DHX8-like [KO:K12818] [EC:5.6.2.6]
114562666  slu7; pre-mRNA-splicing factor SLU7 [KO:K12819]
114545529  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15-like isoform X1 [KO:K12820] [EC:5.6.2.6]
114568426  pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
114554270  snrpb; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
114568166  snrpd1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
114552594  snrpd2; small nuclear ribonucleoprotein Sm D2 [KO:K11096]
114570595  snrpd3; small nuclear ribonucleoprotein Sm D3 [KO:K11088]
114554182  snrpe; small nuclear ribonucleoprotein E [KO:K11097]
114550182  snrpf; small nuclear ribonucleoprotein F [KO:K11098]
114559086  snrpg; small nuclear ribonucleoprotein G [KO:K11099]
114569100  snrnp70; U1 small nuclear ribonucleoprotein 70 kDa [KO:K11093]
114551207  snrpa; U1 small nuclear ribonucleoprotein A [KO:K11091]
114554217  snrpc; U1 small nuclear ribonucleoprotein C [KO:K11095]
114564710  prpf40a; pre-mRNA-processing factor 40 homolog A isoform X1 [KO:K12821]
114547269  RNA-binding protein 25-like isoform X1 [KO:K12822]
114573057  rbm25; RNA-binding protein 25 isoform X1 [KO:K12822]
114569116  probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
114566339  tcerg1; transcription elongation regulator 1 isoform X1 [KO:K12824]
114552526  RNA-binding protein FUS-like isoform X1 [KO:K13098]
114569496  fus; RNA-binding protein FUS [KO:K13098]
114557037  snrpa1; U2 small nuclear ribonucleoprotein A' isoform X1 [KO:K11092]
114564214  snrpb2; U2 small nuclear ribonucleoprotein B'' isoform X1 [KO:K11094]
114555108  sf3a1; splicing factor 3A subunit 1 [KO:K12825]
114565556  sf3a2; splicing factor 3A subunit 2 [KO:K12826]
114567905  sf3a3; splicing factor 3A subunit 3 [KO:K12827]
114563723  sf3b1; splicing factor 3B subunit 1 isoform X1 [KO:K12828]
114545600  sf3b2; splicing factor 3B subunit 2 isoform X1 [KO:K12829]
114560035  sf3b3; splicing factor 3B subunit 3 [KO:K12830]
114568327  sf3b4; splicing factor 3B subunit 4 [KO:K12831]
114572192  sf3b5; splicing factor 3B subunit 5 [KO:K12832]
114573336  sf3b6; splicing factor 3B subunit 6 [KO:K12833]
114548307  phf5a; PHD finger-like domain-containing protein 5A [KO:K12834]
114569094  ddx42; ATP-dependent RNA helicase DDX42 isoform X1 [KO:K12835] [EC:5.6.2.7]
114550911  splicing factor U2AF 35 kDa subunit-like [KO:K12836]
114564170  splicing factor U2AF 35 kDa subunit [KO:K12836]
114570157  splicing factor U2AF 65 kDa subunit-like isoform X1 [KO:K12837]
114556961  u2af2; splicing factor U2AF 65 kDa subunit isoform X1 [KO:K12837]
114549141  puf60; poly(U)-binding-splicing factor PUF60 isoform X1 [KO:K12838]
114572211  smndc1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
114550338  rbm17; splicing factor 45 isoform X1 [KO:K12840]
114561950  cherp; calcium homeostasis endoplasmic reticulum protein isoform X1 [KO:K12841]
114566337  U2 snRNP-associated SURP motif-containing protein-like [KO:K12842]
114548882  u2surp; U2 snRNP-associated SURP motif-containing protein isoform X1 [KO:K12842]
114568285  rp9; retinitis pigmentosa 9 protein [KO:K19604]
114561743  lsm2; U6 snRNA-associated Sm-like protein LSm2 [KO:K12621]
114554404  lsm3; U6 snRNA-associated Sm-like protein LSm3 [KO:K12622]
114561726  lsm4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
114549309  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
114572605  lsm6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
114561611  lsm7; U6 snRNA-associated Sm-like protein LSm7 [KO:K12626]
114550100  lsm8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
114557863  prpf3; U4/U6 small nuclear ribonucleoprotein Prp3 [KO:K12843]
114570764  prpf4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
114558844  ppih; peptidyl-prolyl cis-trans isomerase H [KO:K09567] [EC:5.2.1.8]
114557151  prpf31; U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
114548194  snu13; NHP2-like protein 1 [KO:K12845]
114555654  snrnp27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein [KO:K12846]
114555462  usp39; U4/U6.U5 tri-snRNP-associated protein 2 isoform X1 [KO:K12847]
114573325  sart1; U4/U6.U5 tri-snRNP-associated protein 1 [KO:K11984]
114566786  zmat2; zinc finger matrin-type protein 2 [KO:K12848]
114561682  prpf38a; pre-mRNA-splicing factor 38A [KO:K12849]
114565800  prpf38b; pre-mRNA-splicing factor 38B [KO:K12850]
114569881  eftud2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
114556362  snrnp200; U5 small nuclear ribonucleoprotein 200 kDa helicase [KO:K12854] [EC:5.6.2.6]
114559072  prpf6; pre-mRNA-processing factor 6 [KO:K12855]
114552292  prpf8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
114567861  snrnp40; U5 small nuclear ribonucleoprotein 40 kDa protein [KO:K12857]
114559346  ddx23; probable ATP-dependent RNA helicase DDX23 [KO:K12858] [EC:5.6.2.7]
114568197  txnl4a; thioredoxin-like protein 4A [KO:K12859]
114562753  prpf19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
114571881  cdc5l; cell division cycle 5-like protein [KO:K12860]
114558919  bcas2; pre-mRNA-splicing factor SPF27 [KO:K12861]
114565122  plrg1; pleiotropic regulator 1 [KO:K12862]
114566890  cwc15; spliceosome-associated protein CWC15 homolog [KO:K12863]
114558787  ctnnbl1; beta-catenin-like protein 1 [KO:K12864]
114552471  heat shock cognate 71 kDa protein [KO:K03283]
114566548  heat shock cognate 70 kDa protein [KO:K03283]
114568872  heat shock 70 kDa protein 1 [KO:K03283]
114556549  LOW QUALITY PROTEIN: heat shock cognate 71 kDa protein-like [KO:K03283]
114558137  heat shock 70 kDa protein-like [KO:K03283]
114558493  pqbp1; polyglutamine-binding protein 1 [KO:K12865]
114569060  wbp11; LOW QUALITY PROTEIN: WW domain-binding protein 11 [KO:K12866]
114573127  snw1; SNW domain-containing protein 1 isoform X1 [KO:K06063]
114568899  xab2; pre-mRNA-splicing factor SYF1 [KO:K12867]
114547352  syf2; pre-mRNA-splicing factor SYF2 [KO:K12868]
114573383  crnkl1; crooked neck-like protein 1 [KO:K12869]
114554485  pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
114554021  ppil1; peptidyl-prolyl cis-trans isomerase-like 1 [KO:K12733] [EC:5.2.1.8]
114546364  ppie; peptidyl-prolyl cis-trans isomerase E [KO:K09564] [EC:5.2.1.8]
114557138  ccdc12; coiled-coil domain-containing protein 12 [KO:K12871]
114562647  rbm22; pre-mRNA-splicing factor RBM22 [KO:K12872]
114569904  bud31; protein BUD31 homolog [KO:K12873]
114546709  aqr; RNA helicase aquarius [KO:K12874]
114545942  apoptotic chromatin condensation inducer in the nucleus-like isoform X1 [KO:K12875]
114565025  apoptotic chromatin condensation inducer in the nucleus-like [KO:K12875]
114565986  eif4a3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
114557687  rbm8a; RNA-binding protein 8A isoform X1 [KO:K12876]
114561350  magoh; protein mago nashi homolog [KO:K12877]
114565277  thoc1; THO complex subunit 1 [KO:K12878]
114566366  thoc2; THO complex subunit 2 [KO:K12879]
114562795  thoc3; THO complex subunit 3 [KO:K12880]
114569738  THO complex subunit 4-like [KO:K12881]
114570314  alyref; THO complex subunit 4 [KO:K12881]
114562770  ncbp1; nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
114561728  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
114558650  heterogeneous nuclear ribonucleoprotein A1-like isoform X1 [KO:K12741]
114563558  hnrnpa3; heterogeneous nuclear ribonucleoprotein A3 [KO:K12741]
114565537  heterogeneous nuclear ribonucleoprotein C-like isoform X1 [KO:K12884]
114545522  heterogeneous nuclear ribonucleoprotein C-like isoform X1 [KO:K12884]
114563030  rbmx; RNA-binding motif protein, X chromosome isoform X1 [KO:K12885]
114570651  heterogeneous nuclear ribonucleoprotein K-like isoform X1 [KO:K12886]
114556409  hnrnpk; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
114561344  heterogeneous nuclear ribonucleoprotein M-like isoform X1 [KO:K12887]
114573053  hnrnpu; heterogeneous nuclear ribonucleoprotein U [KO:K12888]
114566325  serine/arginine-rich splicing factor 1-like [KO:K12890]
114551121  serine/arginine-rich splicing factor 1 [KO:K12890]
114570004  serine/arginine-rich splicing factor 2-like isoform X1 [KO:K12891]
114548061  srsf2; serine/arginine-rich splicing factor 2 [KO:K12891]
114553773  serine/arginine-rich splicing factor 3-like [KO:K12892]
114554802  srsf3; serine/arginine-rich splicing factor 3 [KO:K12892]
114559341  serine/arginine-rich splicing factor 6-like [KO:K12893]
114567576  serine/arginine-rich splicing factor 4-like isoform X1 [KO:K12893]
114546510  srsf5; serine/arginine-rich splicing factor 5 isoform X1 [KO:K12893]
114573355  serine/arginine-rich splicing factor 5-like [KO:K12893]
114552806  srsf7; serine/arginine-rich splicing factor 7 [KO:K12896]
114571284  serine/arginine-rich splicing factor 9-like [KO:K21123]
114546726  transformer-2 protein homolog alpha-like isoform X1 [KO:K12897]
114568653  tra2a; transformer-2 protein homolog alpha isoform X1 [KO:K12897]
114564373  transformer-2 protein homolog beta-like isoform X1 [KO:K12897]
114567622  srsf10; serine/arginine-rich splicing factor 10 isoform X1 [KO:K12900]
114557727  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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