KEGG   PATHWAY: salp03015
Entry
salp03015                   Pathway                                
Name
mRNA surveillance pathway - Salvelinus sp. IW2-2015 (Arctic char)
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
salp03015  mRNA surveillance pathway
salp03015

Other DBs
GO: 0071028
Organism
Salvelinus sp. IW2-2015 (Arctic char) [GN:salp]
Gene
111965785  nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
111967538  nuclear cap-binding protein subunit 1 isoform X1 [KO:K12882]
112073652  ncbp2; nuclear cap-binding protein subunit 2 [KO:K12883]
111959860  regulator of nonsense transcripts 3A-like isoform X1 [KO:K14328]
111967624  regulator of nonsense transcripts 3B [KO:K14328]
111965872  upf3b; regulator of nonsense transcripts 3B isoform X1 [KO:K14328]
111973306  regulator of nonsense transcripts 3A-like isoform X1 [KO:K14328]
111959162  LOW QUALITY PROTEIN: RNA-binding protein 8A-like [KO:K12876]
111965131  RNA-binding protein 8A isoform X1 [KO:K12876]
111975355  protein mago nashi homolog [KO:K12877]
111971197  protein mago nashi homolog [KO:K12877]
111980685  protein CASC3 isoform X1 [KO:K14323]
111980894  protein CASC3 [KO:K14323]
111961223  eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
111982265  eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
111957212  sap18; histone deacetylase complex subunit SAP18 [KO:K14324]
111968545  pinin [KO:K13114]
111963435  pinin [KO:K13114]
111979289  apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
111956624  apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
111953219  LOW QUALITY PROTEIN: apoptotic chromatin condensation inducer in the nucleus-like [KO:K12875]
112069116  apoptotic chromatin condensation inducer in the nucleus-like isoform X1 [KO:K12875]
111978526  RNA-binding protein with serine-rich domain 1 isoform X1 [KO:K14325]
112072934  RNA-binding protein with serine-rich domain 1-like [KO:K14325]
112080743  THO complex subunit 4-like [KO:K12881]
111980915  THO complex subunit 4 [KO:K12881]
111961229  THO complex subunit 4 [KO:K12881]
112081341  THO complex subunit 4-like [KO:K12881]
111969689  ATP-dependent RNA helicase DDX19A-like [KO:K18655] [EC:5.6.2.7]
111966727  ATP-dependent RNA helicase DDX19A-like isoform X1 [KO:K18655] [EC:5.6.2.7]
111977276  ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
112080945  ATP-dependent RNA helicase DDX19B-like [KO:K18655] [EC:5.6.2.7]
111957607  gle1; nucleoporin GLE1 isoform X1 [KO:K18723]
111964181  nuclear RNA export factor 1 isoform X1 [KO:K14284]
111950324  nuclear RNA export factor 1 isoform X1 [KO:K14284]
112072524  NTF2-related export protein 2-like [KO:K14285]
111965991  NTF2-related export protein 2 [KO:K14285]
112068840  spliceosome RNA helicase DDX39B [KO:K12812] [EC:5.6.2.7]
112071768  partner of Y14 and mago A isoform X1 [KO:K14294]
111976977  partner of Y14 and mago B [KO:K14294]
111963184  serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
111968806  serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
111972809  rngtt; LOW QUALITY PROTEIN: mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
111972704  rnmt; mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
111982634  RNA-binding protein FUS [KO:K13098]
111982008  fus; RNA-binding protein FUS isoform X1 [KO:K13098]
111960620  RNA-binding protein FUS isoform X1 [KO:K13098]
111976373  TAR DNA-binding protein 43 [KO:K23600]
111966485  tardbp; TAR DNA-binding protein 43 isoform X1 [KO:K23600]
111969781  TAR DNA-binding protein 43 [KO:K23600]
111970140  TAR DNA-binding protein 43 [KO:K23600]
111953156  polyadenylate-binding protein 2-B isoform X1 [KO:K14396]
111969302  embryonic polyadenylate-binding protein 2-B isoform X1 [KO:K14396]
111972758  polyadenylate-binding protein 2 isoform X1 [KO:K14396]
112070098  embryonic polyadenylate-binding protein 2-B-like isoform X1 [KO:K14396]
111952962  cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
111974817  cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
111969480  cleavage and polyadenylation specificity factor subunit 7 isoform X1 [KO:K14398]
112076997  cleavage and polyadenylation specificity factor subunit 6-like isoform X1 [KO:K14398]
112070491  poly(A) polymerase alpha-like [KO:K14376] [EC:2.7.7.19]
112070494  LOW QUALITY PROTEIN: poly(A) polymerase type 3-like [KO:K14376] [EC:2.7.7.19]
112077356  LOW QUALITY PROTEIN: poly(A) polymerase gamma-like [KO:K14376] [EC:2.7.7.19]
111967506  polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
111965753  LOW QUALITY PROTEIN: polyribonucleotide 5'-hydroxyl-kinase Clp1-like [KO:K14399] [EC:2.7.1.78]
111951127  pcf11; pre-mRNA cleavage complex 2 protein Pcf11 isoform X1 [KO:K14400]
111955039  cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
111955734  cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
112070833  cleavage and polyadenylation specificity factor subunit 2-like [KO:K14402]
111954190  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
112069088  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
111972679  cpsf3; cleavage and polyadenylation specificity factor subunit 3 [KO:K14403] [EC:3.1.27.-]
111972313  fip1l1; pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
111964294  pre-mRNA 3'-end-processing factor FIP1 isoform X1 [KO:K14405]
111956930  LOW QUALITY PROTEIN: pre-mRNA 3' end processing protein WDR33 [KO:K15542]
111963203  WD repeat-containing protein 82 [KO:K14962]
111969795  WD repeat-containing protein 82 isoform X1 [KO:K14962]
111969996  WD repeat-containing protein 82 [KO:K14962]
111957760  serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
111977895  serine/threonine-protein phosphatase alpha-2 isoform [KO:K06269] [EC:3.1.3.16]
112068674  serine/threonine-protein phosphatase PP1-beta catalytic subunit-like [KO:K06269] [EC:3.1.3.16]
111954331  serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
111974671  serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
112075309  serine/threonine-protein phosphatase alpha-2 isoform-like [KO:K06269] [EC:3.1.3.16]
111980195  serine/threonine-protein phosphatase alpha-2 isoform [KO:K06269] [EC:3.1.3.16]
111970050  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
111967323  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
112077135  cstf1; cleavage stimulation factor subunit 1 [KO:K14406]
111967422  cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
111965642  cleavage stimulation factor subunit 2 isoform X1 [KO:K14407]
111964253  sympk; symplekin isoform X1 [KO:K06100]
111970258  RNA-binding protein Musashi homolog 1-like isoform X1 [KO:K14411]
111950940  RNA-binding protein Musashi homolog 2-like [KO:K14411]
111950941  RNA-binding protein Musashi homolog 2-like [KO:K14411]
111957605  RNA-binding protein Musashi homolog 1-like isoform X1 [KO:K14411]
111960725  RNA-binding protein Musashi homolog 2-like isoform X1 [KO:K14411]
111980857  msi2; RNA-binding protein Musashi homolog 2 [KO:K14411]
111975581  DAZ-associated protein 1 isoform X1 [KO:K14411]
111973955  RNA-binding protein Musashi homolog 1 isoform X1 [KO:K14411]
111953031  DAZ-associated protein 1 isoform X1 [KO:K14411]
111982717  RNA-binding protein Musashi homolog 2 [KO:K14411]
111964751  RNA-binding protein Musashi homolog 1 [KO:K14411]
111949595  RNA-binding protein Musashi homolog 2-like [KO:K14411]
111975002  LOW QUALITY PROTEIN: polyadenylate-binding protein 1-like [KO:K13126]
111968814  polyadenylate-binding protein 4 isoform X1 [KO:K13126]
111976605  embryonic polyadenylate-binding protein isoform X1 [KO:K13126]
111953938  polyadenylate-binding protein 1-like isoform X1 [KO:K13126]
111963178  polyadenylate-binding protein 4 isoform X1 [KO:K13126]
111953049  tripartite motif-containing protein 47 [KO:K13126]
112069743  polyadenylate-binding protein 1-like [KO:K13126]
111981037  eukaryotic peptide chain release factor subunit 1 [KO:K03265]
111950392  eukaryotic peptide chain release factor subunit 1 [KO:K03265]
111965610  eukaryotic peptide chain release factor subunit 1 [KO:K03265]
111978150  eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
112069520  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
112075268  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
112075540  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
111952926  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
111956547  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
111975641  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
111979393  regulator of nonsense transcripts 1 isoform X1 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
111951397  regulator of nonsense transcripts 2 [KO:K14327]
111950952  regulator of nonsense transcripts 2 isoform X1 [KO:K14327]
111956267  protein SMG7 isoform X1 [KO:K14409]
111978888  smg7; protein SMG7 isoform X1 [KO:K14409]
111958905  protein SMG5 [KO:K11125]
111965135  protein SMG5 [KO:K11125]
112071781  LOW QUALITY PROTEIN: telomerase-binding protein EST1A-like [KO:K11124] [EC:3.1.-.-]
111964039  LOW QUALITY PROTEIN: telomerase-binding protein EST1A-like [KO:K11124] [EC:3.1.-.-]
112069371  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like [KO:K04382] [EC:3.1.3.16]
111981188  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
111961930  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
111963815  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
111974279  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
112069675  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform-like isoform X1 [KO:K04382] [EC:3.1.3.16]
111965999  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform [KO:K04382] [EC:3.1.3.16]
111960566  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
111982763  LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
112073472  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like [KO:K04354]
111964087  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
111978157  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
111951856  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform [KO:K04354]
111961541  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
111950041  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform [KO:K04354]
111957879  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X1 [KO:K04354]
111974262  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform [KO:K04354]
112069053  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B gamma isoform isoform X1 [KO:K04354]
112069729  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
112075388  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha-like [KO:K11583]
111959909  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta isoform X1 [KO:K11583]
111963430  ppp2r3c; serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma [KO:K11583]
111954381  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
111968941  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
112070452  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform-like isoform X1 [KO:K11584]
111972729  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
111968652  ppp2r5e; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform [KO:K11584]
111951887  ppp2r5d; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform isoform X1 [KO:K11584]
111954655  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X1 [KO:K11584]
112072581  LOW QUALITY PROTEIN: serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform-like [KO:K11584]
111951769  ppp2r5b; serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform isoform X1 [KO:K11584]
111978390  pelo; protein pelota homolog [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
salp03013  Nucleocytoplasmic transport
salp03018  RNA degradation
salp03040  Spliceosome
KO pathway
ko03015   
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