KEGG   PATHWAY: oki03015
Entry
oki03015                    Pathway                                
Name
mRNA surveillance pathway - Oncorhynchus kisutch (coho salmon)
Description
The mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go decay (NGD). NMD is a mechanism that eliminates mRNAs containing premature translation-termination codons (PTCs). In vertebrates, PTCs trigger efficient NMD when located upstream of an exon junction complex (EJC). Upf3, together with Upf1 and Upf2, may signal the presence of the PTC to the 5'end of the transcript, resulting in decapping and rapid exonucleolytic digestion of the mRNA. In the NSD pathway, which targets mRNAs lacking termination codons, the ribosome is believed to translate through the 3' untranslated region and stall at the end of the poly(A) tail. NSD involves an eRF3-like protein, Ski7p, which is hypothesized to bind the empty A site of the ribosome and recruit the exosome to degrade the mRNA from the 3' end. NGD targets mRNAs with stalls in translation elongation for endonucleolytic cleavage in a process involving the Dom34 and Hbs1 proteins.
Class
Genetic Information Processing; Translation
Pathway map
oki03015  mRNA surveillance pathway
oki03015

Other DBs
GO: 0071028
Organism
Oncorhynchus kisutch (coho salmon) [GN:oki]
Gene
109905233  nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
109864803  nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
109902891  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
109905317  regulator of nonsense transcripts 3B-like [KO:K14328]
109871428  regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
109904069  regulator of nonsense transcripts 3A-like isoform X1 [KO:K14328]
109864885  upf3b; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
109908795  RNA-binding protein 8A-like isoform X1 [KO:K12876]
109902053  RNA-binding protein 8A isoform X1 [KO:K12876]
109898111  protein mago nashi homolog isoform X1 [KO:K12877]
109902812  protein mago nashi homolog [KO:K12877]
109898347  protein CASC3 isoform X1 [KO:K14323]
109893258  protein CASC3-like [KO:K14323]
109875529  eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
109890442  eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
109890511  histone deacetylase complex subunit SAP18-like [KO:K14324]
109879366  histone deacetylase complex subunit SAP18 [KO:K14324]
109894364  pinin [KO:K13114]
109904213  pinin-like [KO:K13114]
109896968  apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
109906432  apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
109871745  apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
109874898  apoptotic chromatin condensation inducer in the nucleus-like [KO:K12875]
109865737  RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
109876007  RNA-binding protein with serine-rich domain 1 [KO:K14325]
116370377  RNA-binding protein with serine-rich domain 1-like [KO:K14325]
109889366  THO complex subunit 4-like [KO:K12881]
109893546  THO complex subunit 4-like [KO:K12881]
109893547  THO complex subunit 4-like [KO:K12881]
109888012  THO complex subunit 4-like [KO:K12881]
109869440  ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
109899662  ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
109908230  ATP-dependent RNA helicase DDX19A isoform X1 [KO:K18655] [EC:5.6.2.7]
109895770  gle1; nucleoporin GLE1 [KO:K18723]
109872938  nuclear RNA export factor 1 isoform X1 [KO:K14284]
109864984  nuclear RNA export factor 1-like isoform X1 [KO:K14284]
109874124  nuclear RNA export factor 1 [KO:K14284]
109878599  NTF2-related export protein 2 [KO:K14285]
109907129  spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
109869444  partner of Y14 and mago B [KO:K14294]
109908195  partner of Y14 and mago A [KO:K14294]
109894582  serine/arginine repetitive matrix protein 1-like isoform X1 [KO:K13171]
109903963  serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
109866654  rngtt; mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
109881174  rnmt; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
109908844  RNA-binding protein FUS isoform X1 [KO:K13098]
109905361  RNA-binding protein FUS-like isoform X1 [KO:K13098]
109893094  fus; RNA-binding protein FUS isoform X1 [KO:K13098]
109898680  TAR DNA-binding protein 43-like [KO:K23600]
109890877  TAR DNA-binding protein 43 [KO:K23600]
109908031  tardbp; TAR DNA-binding protein 43 isoform X2 [KO:K23600]
109883937  TAR DNA-binding protein 43 isoform X1 [KO:K23600]
109886578  embryonic polyadenylate-binding protein 2-B isoform X1 [KO:K14396]
109899354  polyadenylate-binding protein 2-B isoform X1 [KO:K14396]
109909774  polyadenylate-binding protein 2-like isoform X1 [KO:K14396]
109895459  embryonic polyadenylate-binding protein 2-B-like isoform X1 [KO:K14396]
109888185  cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
109888654  cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
109882456  cleavage and polyadenylation specificity factor subunit 5-like isoform X1 [KO:K14397]
109884570  cleavage and polyadenylation specificity factor subunit 6 isoform X1 [KO:K14398]
109888428  cleavage and polyadenylation specificity factor subunit 7-like isoform X1 [KO:K14398]
116360506  cleavage and polyadenylation specificity factor subunit 6-like isoform X1 [KO:K14398]
109881445  cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
109876040  poly(A) polymerase gamma-like isoform X1 [KO:K14376] [EC:2.7.7.19]
109900501  poly(A) polymerase type 3 [KO:K14376] [EC:2.7.7.19]
109877640  poly(A) polymerase gamma-like isoform X1 [KO:K14376] [EC:2.7.7.19]
109881279  poly(A) polymerase alpha-like [KO:K14376] [EC:2.7.7.19]
109905208  polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
109880670  polyribonucleotide 5'-hydroxyl-kinase Clp1-like isoform X1 [KO:K14399] [EC:2.7.1.78]
109864441  pcf11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
109907408  cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
109903526  cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
109900883  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
109866360  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
109866322  cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
109886605  cleavage and polyadenylation specificity factor subunit 4 [KO:K14404]
116359934  cleavage and polyadenylation specificity factor subunit 4-like [KO:K14404]
109898024  pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
109886033  pre-mRNA 3'-end-processing factor FIP1-like [KO:K14405]
109887214  pre-mRNA 3'-end-processing factor FIP1 [KO:K14405]
109874255  pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
109875372  wdr33; pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
109890889  wdr82; WD repeat-containing protein 82 isoform X1 [KO:K14962]
109892786  WD repeat-containing protein 82 isoform X1 [KO:K14962]
109897095  serine/threonine-protein phosphatase PP1-beta catalytic subunit isoform X2 [KO:K06269] [EC:3.1.3.16]
109878257  serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
116374489  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
109906577  serine/threonine-protein phosphatase PP1-beta catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
109900911  serine/threonine-protein phosphatase PP1-beta catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
109865607  serine/threonine-protein phosphatase alpha-2 isoform [KO:K06269] [EC:3.1.3.16]
109878667  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
109866344  serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
109895786  serine/threonine-protein phosphatase PP1-gamma catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
109891094  RNA polymerase II subunit A C-terminal domain phosphatase SSU72-like [KO:K15544] [EC:3.1.3.16]
109896075  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
109884393  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
109905119  cleavage stimulation factor subunit 2 isoform X3 [KO:K14407]
109864718  cstf2; cleavage stimulation factor subunit 2 isoform X3 [KO:K14407]
109880377  cleavage stimulation factor subunit 3 [KO:K14408]
109880375  cleavage stimulation factor subunit 3 [KO:K14408]
109873789  sympk; symplekin isoform X1 [KO:K06100]
109889143  DAZ-associated protein 1 isoform X1 [KO:K14411]
109878474  RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
109872858  RNA-binding protein Musashi homolog 2-like isoform X1 [KO:K14411]
109905832  RNA-binding protein Musashi homolog 2-like isoform X1 [KO:K14411]
109891240  RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
109892571  RNA-binding protein Musashi homolog 2 isoform X6 [KO:K14411]
109909234  RNA-binding protein Musashi homolog 2-like isoform X1 [KO:K14411]
109893933  RNA-binding protein Musashi homolog 1-like [KO:K14411]
109902394  DAZ-associated protein 1 isoform X1 [KO:K14411]
109895804  msi1; RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
109869850  embryonic polyadenylate-binding protein isoform X1 [KO:K13126]
109883393  polyadenylate-binding protein 1A isoform X1 [KO:K13126]
109886876  polyadenylate-binding protein 1A isoform X1 [KO:K13126]
109890670  polyadenylate-binding protein 4-like [KO:K13126]
109894590  polyadenylate-binding protein 4-like isoform X1 [KO:K13126]
116366029  polyadenylate-binding protein 1A isoform X1 [KO:K13126]
109903959  polyadenylate-binding protein 4 [KO:K13126]
109878411  eukaryotic peptide chain release factor subunit 1-like [KO:K03265]
109892550  eukaryotic peptide chain release factor subunit 1-like [KO:K03265]
109864690  eukaryotic peptide chain release factor subunit 1-like [KO:K03265]
109872779  eukaryotic peptide chain release factor subunit 1 [KO:K03265]
109870044  eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X2 [KO:K03267]
109900009  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
109893578  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
109893579  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like isoform X1 [KO:K03267]
109889114  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
109871959  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
109902372  regulator of nonsense transcripts 1-like isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
109874537  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
109896807  regulator of nonsense transcripts 2 isoform X8 [KO:K14327]
109864368  regulator of nonsense transcripts 2 isoform X3 [KO:K14327]
109883951  LOW QUALITY PROTEIN: serine/threonine-protein kinase SMG1-like [KO:K08873] [EC:2.7.11.1]
109883746  LOW QUALITY PROTEIN: serine/threonine-protein kinase SMG1 [KO:K08873] [EC:2.7.11.1]
109872331  smg7; protein SMG7 isoform X1 [KO:K14409]
109874530  protein SMG7 isoform X4 [KO:K14409]
109908834  protein SMG5-like [KO:K11125]
109902058  protein SMG5-like [KO:K11125]
109882507  telomerase-binding protein EST1A-like [KO:K11124] [EC:3.1.-.-]
109873915  telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
109868449  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
109878339  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like isoform X1 [KO:K04382] [EC:3.1.3.16]
109884502  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
109892950  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
109872962  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like isoform X1 [KO:K04382] [EC:3.1.3.16]
109880541  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like [KO:K04382] [EC:3.1.3.16]
109873995  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
109905370  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
109908852  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X1 [KO:K03456]
116371281  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform-like [KO:K04354]
116371870  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
109910257  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
109868549  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform-like [KO:K04354]
109889965  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
109905088  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
109899731  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform-like isoform X1 [KO:K04354]
109876768  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
109879147  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
109892993  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
116360078  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform-like [KO:K04354]
109884774  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like [KO:K04354]
109873045  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X2 [KO:K04354]
109873786  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
109895856  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform-like [KO:K04354]
109894822  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma-like [KO:K11583]
109871061  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
109883522  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583]
116354734  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha-like [KO:K11583]
109883024  ppp2r3a; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha [KO:K11583]
109904207  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
109896413  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
109889848  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X2 [KO:K11584]
109899651  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
109894438  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
109900944  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
109901337  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform-like [KO:K11584]
109866260  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform-like [KO:K11584]
109894692  ppp2r5c; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
109903809  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform-like isoform X3 [KO:K11584]
109904116  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
109885447  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform-like isoform X1 [KO:K11584]
109883966  HBS1-like protein isoform X1 [KO:K14416]
109883285  hbs1l; HBS1-like protein [KO:K14416]
109865601  pelo; protein pelota homolog isoform X1 [KO:K06965]
Reference
PMID:15040442
  Authors
Maquat LE
  Title
Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics.
  Journal
Nat Rev Mol Cell Biol 5:89-99 (2004)
DOI:10.1038/nrm1310
Reference
PMID:16723977
  Authors
Amrani N, Sachs MS, Jacobson A
  Title
Early nonsense: mRNA decay solves a translational problem.
  Journal
Nat Rev Mol Cell Biol 7:415-25 (2006)
DOI:10.1038/nrm1942
Reference
PMID:17183357
  Authors
Eulalio A, Behm-Ansmant I, Izaurralde E
  Title
P bodies: at the crossroads of post-transcriptional pathways.
  Journal
Nat Rev Mol Cell Biol 8:9-22 (2007)
DOI:10.1038/nrm2080
Reference
PMID:18158581
  Authors
Mandel CR, Bai Y, Tong L
  Title
Protein factors in pre-mRNA 3'-end processing.
  Journal
Cell Mol Life Sci 65:1099-122 (2008)
DOI:10.1007/s00018-007-7474-3
Reference
PMID:16715045
  Authors
Clement SL, Lykke-Andersen J
  Title
No mercy for messages that mess with the ribosome.
  Journal
Nat Struct Mol Biol 13:299-301 (2006)
DOI:10.1038/nsmb0406-299
Related
pathway
oki03013  Nucleocytoplasmic transport
oki03018  RNA degradation
oki03040  Spliceosome
KO pathway
ko03015   
LinkDB

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