KEGG   PATHWAY: ccw03040
Entry
ccw03040                    Pathway                                
Name
Spliceosome - Corvus cornix (hooded crow)
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
ccw03040  Spliceosome
ccw03040

Other DBs
GO: 0005681
Organism
Corvus cornix (hooded crow) [GN:ccw]
Gene
120411813  U1 spliceosomal RNA [KO:K14276]
120411572  U1 spliceosomal RNA [KO:K14276]
120411668  U2 spliceosomal RNA [KO:K14277]
120410879  U4 spliceosomal RNA [KO:K14278]
120410880  U4 spliceosomal RNA [KO:K14278]
120410441  U5 spliceosomal RNA [KO:K14279]
120410433  U5 spliceosomal RNA [KO:K14279]
120410423  U5 spliceosomal RNA [KO:K14279]
120410994  U6 spliceosomal RNA [KO:K14280]
104683727  DDX46; probable ATP-dependent RNA helicase DDX46 [KO:K12811] [EC:5.6.2.7]
104691958  DHX38; pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 [KO:K12815] [EC:5.6.2.6]
104694100  CDC40; pre-mRNA-processing factor 17 [KO:K12816]
104694525  PRPF18; LOW QUALITY PROTEIN: pre-mRNA-splicing factor 18 [KO:K12817]
104697776  DHX8; ATP-dependent RNA helicase DHX8 [KO:K12818] [EC:5.6.2.6]
104697977  SLU7; pre-mRNA-splicing factor SLU7 isoform X1 [KO:K12819]
104690894  DHX15; pre-mRNA-splicing factor ATP-dependent RNA helicase DHX15 [KO:K12820] [EC:5.6.2.6]
104687733  SNRPB; small nuclear ribonucleoprotein-associated proteins B and B' [KO:K11086]
104688963  SNRPD1; small nuclear ribonucleoprotein Sm D1 [KO:K11087]
104688576  SNRPD3; small nuclear ribonucleoprotein Sm D3 [KO:K11088]
104692519  SNRPE; small nuclear ribonucleoprotein E [KO:K11097]
120411904  SNRPF; small nuclear ribonucleoprotein F [KO:K11098]
120411167  SNRPG; small nuclear ribonucleoprotein G isoform X1 [KO:K11099]
104692540  SNRPC; U1 small nuclear ribonucleoprotein C [KO:K11095]
104694231  PRPF40A; pre-mRNA-processing factor 40 homolog A [KO:K12821]
104683301  RBM25; RNA-binding protein 25 isoform X1 [KO:K12822]
104694236  DDX5; probable ATP-dependent RNA helicase DDX5 isoform X1 [KO:K12823] [EC:5.6.2.7]
104689469  TCERG1; transcription elongation regulator 1 isoform X1 [KO:K12824]
104684075  SNRPA1; U2 small nuclear ribonucleoprotein A' isoform X1 [KO:K11092]
104691544  SNRPB2; U2 small nuclear ribonucleoprotein B'' isoform X1 [KO:K11094]
104695029  SF3A1; splicing factor 3A subunit 1 [KO:K12825]
104696941  SF3A2; LOW QUALITY PROTEIN: splicing factor 3A subunit 2 [KO:K12826]
104694136  SF3B1; splicing factor 3B subunit 1 isoform X1 [KO:K12828]
104687515  SF3B3; splicing factor 3B subunit 3 [KO:K12830]
120411783  SF3B5; splicing factor 3B subunit 5 [KO:K12832]
104685401  SF3B6; splicing factor 3B subunit 6 [KO:K12833]
104696534  PHF5A; PHD finger-like domain-containing protein 5A isoform X1 [KO:K12834]
104692115  LOW QUALITY PROTEIN: PHD finger-like domain-containing protein 5A [KO:K12834]
104698644  DDX42; ATP-dependent RNA helicase DDX42 isoform X1 [KO:K12835] [EC:5.6.2.7]
104686256  U2AF1; splicing factor U2AF 35 kDa subunit isoform X1 [KO:K12836]
104684215  PUF60; poly(U)-binding-splicing factor PUF60 isoform X1 [KO:K12838]
104695307  SMNDC1; survival of motor neuron-related-splicing factor 30 [KO:K12839]
104694522  RBM17; splicing factor 45 isoform X1 [KO:K12840]
104697349  calcium homeostasis endoplasmic reticulum protein isoform X1 [KO:K12841]
104693457  U2 snRNP-associated SURP motif-containing protein isoform X5 [KO:K12842]
104688959  RP9; retinitis pigmentosa 9 protein [KO:K19604]
104683307  LSM3; U6 snRNA-associated Sm-like protein LSm3 isoform X1 [KO:K12622]
104697381  LSM4; U6 snRNA-associated Sm-like protein LSm4 [KO:K12623]
104690444  LSM5; U6 snRNA-associated Sm-like protein LSm5 isoform X1 [KO:K12624]
104697237  LSM6; U6 snRNA-associated Sm-like protein LSm6 [KO:K12625]
104696970  LSM7; U6 snRNA-associated Sm-like protein LSm7 isoform X1 [KO:K12626]
104698287  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
104688428  PRPF4; U4/U6 small nuclear ribonucleoprotein Prp4 [KO:K12662]
104697537  PPIH; peptidyl-prolyl cis-trans isomerase H [KO:K09567] [EC:5.2.1.8]
104697325  PRPF31; LOW QUALITY PROTEIN: U4/U6 small nuclear ribonucleoprotein Prp31 [KO:K12844]
104692300  NHP2-like protein 1 [KO:K12845]
104696539  SNU13; NHP2-like protein 1 [KO:K12845]
104683172  SNRNP27; U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein isoform X1 [KO:K12846]
104683173  USP39; U4/U6.U5 tri-snRNP-associated protein 2 [KO:K12847]
104696160  zinc finger matrin-type protein 2-like [KO:K12848]
104693552  ZMAT2; zinc finger matrin-type protein 2 [KO:K12848]
104695195  PRPF38A; pre-mRNA-splicing factor 38A [KO:K12849]
120410656  LOW QUALITY PROTEIN: pre-mRNA-splicing factor 38A-like [KO:K12849]
104695581  PRPF38B; pre-mRNA-splicing factor 38B isoform X1 [KO:K12850]
104698532  EFTUD2; 116 kDa U5 small nuclear ribonucleoprotein component [KO:K12852]
104687825  PRPF6; pre-mRNA-processing factor 6 [KO:K12855]
104691211  PRPF8; pre-mRNA-processing-splicing factor 8 [KO:K12856]
104688863  TXNL4A; thioredoxin-like protein 4A isoform X2 [KO:K12859]
104684122  PRPF19; pre-mRNA-processing factor 19 [KO:K10599] [EC:2.3.2.27]
104685480  CDC5L; cell division cycle 5-like protein [KO:K12860]
104692555  BCAS2; pre-mRNA-splicing factor SPF27 [KO:K12861]
104697170  PLRG1; pleiotropic regulator 1 [KO:K12862]
104690079  CWC15; spliceosome-associated protein CWC15 homolog [KO:K12863]
104687852  CTNNBL1; beta-catenin-like protein 1 [KO:K12864]
104692112  HSPA8; heat shock cognate 71 kDa protein [KO:K03283]
120412231  PQBP1; polyglutamine-binding protein 1 [KO:K12865]
104696401  WBP11; WW domain-binding protein 11 [KO:K12866]
104685513  SNW1; SNW domain-containing protein 1 [KO:K06063]
104691472  CRNKL1; crooked neck-like protein 1 [KO:K12869]
104695741  ISY1; pre-mRNA-splicing factor ISY1 homolog [KO:K12870]
104692476  PPIL1; peptidyl-prolyl cis-trans isomerase-like 1 isoform X1 [KO:K12733] [EC:5.2.1.8]
104686377  CCDC12; coiled-coil domain-containing protein 12 [KO:K12871]
104689570  RBM22; pre-mRNA-splicing factor RBM22 [KO:K12872]
104684792  BUD31; protein BUD31 homolog [KO:K12873]
104684375  AQR; RNA helicase aquarius [KO:K12874]
104696659  EIF4A3; eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
104695183  MAGOH; protein mago nashi homolog [KO:K12877]
104687307  THOC1; THO complex subunit 1 isoform X2 [KO:K12878]
104694478  THOC2; THO complex subunit 2 isoform X1 [KO:K12879]
104689531  THOC3; THO complex subunit 3 [KO:K12880]
104698227  ALYREF; THO complex subunit 4 [KO:K12881]
104689787  NCBP1; nuclear cap-binding protein subunit 1 [KO:K12882]
104693501  LOW QUALITY PROTEIN: protein gar2 [KO:K12883]
104691750  nuclear cap-binding protein subunit 2 [KO:K12883]
104693838  HNRNPA3; heterogeneous nuclear ribonucleoprotein A3 isoform X1 [KO:K12741]
104691324  RBMX; RNA-binding motif protein, X chromosome isoform X1 [KO:K12885]
104691999  HNRNPK; heterogeneous nuclear ribonucleoprotein K isoform X1 [KO:K12886]
104697370  HNRNPM; heterogeneous nuclear ribonucleoprotein M isoform X1 [KO:K12887]
104684397  HNRNPU; heterogeneous nuclear ribonucleoprotein U [KO:K12888]
104690977  SRSF1; serine/arginine-rich splicing factor 1 [KO:K12890]
104694338  SRSF2; serine/arginine-rich splicing factor 2 [KO:K12891]
104692420  SRSF3; serine/arginine-rich splicing factor 3 [KO:K12892]
104683602  SRSF5; serine/arginine-rich splicing factor 5 isoform X1 [KO:K12893]
104683729  serine/arginine-rich splicing factor 5-like [KO:K12893]
104698034  SRSF6; serine/arginine-rich splicing factor 6 [KO:K12893]
104697705  SRSF4; serine/arginine-rich splicing factor 4 [KO:K12893]
104696661  LOW QUALITY PROTEIN: serine/arginine-rich splicing factor 7 [KO:K12896]
104696662  serine/arginine-rich splicing factor 7-like isoform X1 [KO:K12896]
104689106  TRA2A; transformer-2 protein homolog alpha isoform X4 [KO:K12897]
104696708  TRA2B; transformer-2 protein homolog beta isoform X1 [KO:K12897]
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