KEGG   PATHWAY: tmu03015
Entry
tmu03015                    Pathway                                
Name
mRNA surveillance pathway - Trichechus manatus latirostris (Florida manatee)
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
tmu03015  mRNA surveillance pathway
tmu03015

Other DBs
GO: 0071028
Organism
Trichechus manatus latirostris (Florida manatee) [GN:tmu]
Gene
101340800  nuclear cap-binding protein subunit 1 isoform X4 [KO:K12882]
101354323  nuclear cap-binding protein subunit 2 isoform X1 [KO:K12883]
101361565  regulator of nonsense transcripts 3A isoform X1 [KO:K14328]
101344390  regulator of nonsense transcripts 3B isoform X2 [KO:K14328]
101352282  RNA-binding protein 8A [KO:K12876]
101347989  protein mago nashi homolog 2 [KO:K12877]
101355072  protein mago nashi homolog [KO:K12877]
101361438  protein CASC3 isoform X1 [KO:K14323]
101344118  eukaryotic initiation factor 4A-III [KO:K13025] [EC:5.6.2.7]
101340670  histone deacetylase complex subunit SAP18 [KO:K14324]
101349701  pinin isoform X1 [KO:K13114]
101343564  apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
101359958  RNA-binding protein with serine-rich domain 1 [KO:K14325]
101340286  THO complex subunit 4 [KO:K12881]
101342790  LOW QUALITY PROTEIN: ATP-dependent RNA helicase DDX19A [KO:K18655] [EC:5.6.2.7]
101343039  ATP-dependent RNA helicase DDX19B [KO:K18655] [EC:5.6.2.7]
101353394  nucleoporin GLE1 [KO:K18723]
101342572  nuclear RNA export factor 2-like [KO:K14284]
101345001  nuclear RNA export factor 2-like [KO:K14284]
101362056  nuclear RNA export factor 1 isoform X1 [KO:K14284]
101342413  nuclear RNA export factor 3-like [KO:K14284]
101341638  nuclear RNA export factor 3 [KO:K14284]
101342657  nuclear RNA export factor 2-like [KO:K14284]
101343412  nuclear RNA export factor 3-like [KO:K14284]
101343677  LOW QUALITY PROTEIN: nuclear RNA export factor 2-like [KO:K14284]
101352883  NTF2-related export protein 1 [KO:K14285]
101351071  NTF2-related export protein 2 isoform X4 [KO:K14285]
101341139  spliceosome RNA helicase DDX39B isoform X1 [KO:K12812] [EC:5.6.2.7]
101357224  LOW QUALITY PROTEIN: partner of Y14 and mago [KO:K14294]
101351236  serine/arginine repetitive matrix protein 1 isoform X2 [KO:K13171]
101343829  mRNA cap guanine-N7 methyltransferase [KO:K00565] [EC:2.1.1.56]
101357666  RNA-binding protein FUS isoform X1 [KO:K13098]
101342618  TAR DNA-binding protein 43 [KO:K23600]
101348094  embryonic polyadenylate-binding protein 2 [KO:K14396]
111819095  polyadenylate-binding protein 2 [KO:K14396]
101357106  cleavage and polyadenylation specificity factor subunit 5 [KO:K14397]
101348536  cleavage and polyadenylation specificity factor subunit 7 [KO:K14398]
101349913  cleavage and polyadenylation specificity factor subunit 6 isoform X4 [KO:K14398]
101358107  poly(A) polymerase gamma isoform X2 [KO:K14376] [EC:2.7.7.19]
101360335  LOW QUALITY PROTEIN: poly(A) polymerase beta [KO:K14376] [EC:2.7.7.19]
101354507  poly(A) polymerase alpha isoform X1 [KO:K14376] [EC:2.7.7.19]
101359940  polyribonucleotide 5'-hydroxyl-kinase Clp1 [KO:K14399] [EC:2.7.1.78]
101351708  pre-mRNA cleavage complex 2 protein Pcf11 isoform X2 [KO:K14400]
101360796  cleavage and polyadenylation specificity factor subunit 1 [KO:K14401]
101340372  cleavage and polyadenylation specificity factor subunit 2 isoform X1 [KO:K14402]
101351216  cleavage and polyadenylation specificity factor subunit 3 isoform X1 [KO:K14403] [EC:3.1.27.-]
101358918  putative cleavage and polyadenylation specificity factor subunit 4-like protein [KO:K14404]
101349392  cleavage and polyadenylation specificity factor subunit 4 isoform X1 [KO:K14404]
101350080  pre-mRNA 3'-end-processing factor FIP1 isoform X3 [KO:K14405]
101351108  pre-mRNA 3' end processing protein WDR33 isoform X1 [KO:K15542]
101352229  WD repeat-containing protein 82 [KO:K14962]
101346316  serine/threonine-protein phosphatase PP1-gamma catalytic subunit [KO:K06269] [EC:3.1.3.16]
101344889  serine/threonine-protein phosphatase PP1-alpha catalytic subunit isoform X1 [KO:K06269] [EC:3.1.3.16]
101345455  serine/threonine-protein phosphatase PP1-beta catalytic subunit [KO:K06269] [EC:3.1.3.16]
101352738  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
101351652  cleavage stimulation factor subunit 1 isoform X1 [KO:K14406]
101352496  cleavage stimulation factor subunit 2 tau variant [KO:K14407]
101358754  cleavage stimulation factor subunit 2 [KO:K14407]
101358635  cleavage stimulation factor subunit 3 isoform X1 [KO:K14408]
101358072  symplekin [KO:K06100]
101343006  RNA-binding protein Musashi homolog 2 isoform X1 [KO:K14411]
101340723  RNA-binding protein Musashi homolog 1 [KO:K14411]
101346917  DAZ-associated protein 1 isoform X1 [KO:K14411]
101352079  polyadenylate-binding protein 1-like isoform X2 [KO:K13126]
101356360  polyadenylate-binding protein 4 isoform X1 [KO:K13126]
101341913  polyadenylate-binding protein 5 [KO:K13126]
101352504  polyadenylate-binding protein 1 [KO:K13126]
101344968  polyadenylate-binding protein 1-like 2 [KO:K13126]
101345217  polyadenylate-binding protein 1-like 2 [KO:K13126]
101345333  polyadenylate-binding protein 4-like [KO:K13126]
101360857  eukaryotic peptide chain release factor subunit 1 isoform X1 [KO:K03265]
101340569  LOW QUALITY PROTEIN: eukaryotic peptide chain release factor subunit 1-like [KO:K03265]
101358489  LOW QUALITY PROTEIN: eukaryotic peptide chain release factor GTP-binding subunit ERF3B [KO:K03267]
101357870  eukaryotic peptide chain release factor GTP-binding subunit ERF3A [KO:K03267]
101361458  regulator of nonsense transcripts 1 isoform X2 [KO:K14326] [EC:5.6.2.5 5.6.2.3]
101351600  regulator of nonsense transcripts 2 [KO:K14327]
101344613  serine/threonine-protein kinase SMG1 isoform X1 [KO:K08873] [EC:2.7.11.1]
101361077  protein SMG7 isoform X2 [KO:K14409]
101343548  protein SMG5 [KO:K11125]
101360842  telomerase-binding protein EST1A isoform X1 [KO:K11124] [EC:3.1.-.-]
101358337  serine/threonine-protein phosphatase 2A catalytic subunit beta isoform [KO:K04382] [EC:3.1.3.16]
101350333  serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform isoform X1 [KO:K04382] [EC:3.1.3.16]
101344236  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform isoform X3 [KO:K03456]
101347357  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform [KO:K03456]
101347198  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
101343363  protein phosphatase 2, regulatory subunit B, gamma [KO:K04354]
101352293  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform isoform X2 [KO:K04354]
101358479  serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B delta isoform isoform X1 [KO:K04354]
101356463  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit gamma isoform X1 [KO:K11583]
101353925  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit alpha isoform X1 [KO:K11583]
101360090  serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta [KO:K11583]
101349860  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit epsilon isoform isoform X1 [KO:K11584]
101345308  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit beta isoform [KO:K11584]
101353776  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit alpha isoform [KO:K11584]
101350461  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform isoform X4 [KO:K11584]
101355704  serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform [KO:K11584]
101348222  HBS1-like protein isoform X1 [KO:K14416]
101347763  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
tmu03013  Nucleocytoplasmic transport
tmu03018  RNA degradation
tmu03040  Spliceosome
KO pathway
ko03015   
LinkDB

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