KEGG   PATHWAY: gab03015
Entry
gab03015                    Pathway                                
Name
mRNA surveillance pathway - Gossypium arboreum (tree cotton)
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
gab03015  mRNA surveillance pathway
gab03015

Other DBs
GO: 0071028
Organism
Gossypium arboreum (tree cotton) [GN:gab]
Gene
108453488  nuclear cap-binding protein subunit 1 [KO:K12882]
108476096  nuclear cap-binding protein subunit 2 [KO:K12883]
108474472  regulator of nonsense transcripts UPF3-like isoform X1 [KO:K14328]
108479203  regulator of nonsense transcripts UPF3-like [KO:K14328]
108460965  regulator of nonsense transcripts UPF3 isoform X1 [KO:K14328]
108457087  RNA-binding protein 8A-like [KO:K12876]
108450326  RNA-binding protein 8A-like [KO:K12876]
108452949  RNA-binding protein 8A-like [KO:K12876]
108478679  protein mago nashi homolog [KO:K12877]
108459315  protein mago nashi homolog [KO:K12877]
108461752  protein mago nashi homolog [KO:K12877]
108476621  eukaryotic initiation factor 4A-3 [KO:K13025] [EC:5.6.2.7]
108480198  eukaryotic initiation factor 4A-3-like [KO:K13025] [EC:5.6.2.7]
108459884  eukaryotic initiation factor 4A-3-like [KO:K13025] [EC:5.6.2.7]
108464448  eukaryotic initiation factor 4A-3 [KO:K13025] [EC:5.6.2.7]
108471172  histone deacetylase complex subunit SAP18 [KO:K14324]
108483810  pinin [KO:K13114]
108478007  uncharacterized protein LOC108478007 [KO:K12875]
108466554  apoptotic chromatin condensation inducer in the nucleus-like isoform X1 [KO:K12875]
108466555  apoptotic chromatin condensation inducer in the nucleus-like [KO:K12875]
108464587  LOW QUALITY PROTEIN: serine/arginine-rich splicing factor SR45-like [KO:K14325]
108461781  serine/arginine-rich splicing factor SR45-like [KO:K14325]
108483602  THO complex subunit 4A-like [KO:K12881]
108483680  THO complex subunit 4D-like [KO:K12881]
108470232  THO complex subunit 4A-like [KO:K12881]
108486619  THO complex subunit 4A-like [KO:K12881]
108458272  THO complex subunit 4A-like [KO:K12881]
108455372  THO complex subunit 4A-like [KO:K12881]
108482734  DEAD-box ATP-dependent RNA helicase 38-like [KO:K18655] [EC:5.6.2.7]
108465691  DEAD-box ATP-dependent RNA helicase 38-like [KO:K18655] [EC:5.6.2.7]
108454282  DEAD-box ATP-dependent RNA helicase 38-like [KO:K18655] [EC:5.6.2.7]
108463222  DEAD-box ATP-dependent RNA helicase 38-like [KO:K18655] [EC:5.6.2.7]
108457791  protein GLE1 isoform X1 [KO:K18723]
108470293  DEAD-box ATP-dependent RNA helicase 56-like [KO:K12812] [EC:5.6.2.7]
108473856  DEAD-box ATP-dependent RNA helicase 56-like [KO:K12812] [EC:5.6.2.7]
108489629  DEAD-box ATP-dependent RNA helicase 56-like isoform X1 [KO:K12812] [EC:5.6.2.7]
108486679  DEAD-box ATP-dependent RNA helicase 56 [KO:K12812] [EC:5.6.2.7]
108464310  DEAD-box ATP-dependent RNA helicase 56-like [KO:K12812] [EC:5.6.2.7]
108474746  partner of Y14 and mago-like isoform X1 [KO:K14294]
108466510  partner of Y14 and mago-like [KO:K14294]
108486311  serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
108467315  mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
108473646  mRNA-capping enzyme-like [KO:K13917] [EC:2.7.7.50 3.6.1.74]
108482375  mRNA cap guanine-N7 methyltransferase 1-like [KO:K00565] [EC:2.1.1.56]
108487143  mRNA cap guanine-N7 methyltransferase 2 [KO:K00565] [EC:2.1.1.56]
108464301  mRNA cap guanine-N7 methyltransferase 1 isoform X1 [KO:K00565] [EC:2.1.1.56]
108483440  transcription initiation factor TFIID subunit 15b-like isoform X1 [KO:K13098]
108483519  transcription initiation factor TFIID subunit 15b-like [KO:K13098]
108480804  polyadenylate-binding protein 1-like [KO:K14396]
108467172  polyadenylate-binding protein 2 isoform X1 [KO:K14396]
108476794  polyadenylate-binding protein 2-like [KO:K14396]
108476807  polyadenylate-binding protein 1-like isoform X1 [KO:K14396]
108461186  polyadenylate-binding protein 2-like [KO:K14396]
108454812  polyadenylate-binding protein 1-like [KO:K14396]
108468872  pre-mRNA cleavage factor Im 25 kDa subunit 2 [KO:K14397]
108486410  pre-mRNA cleavage factor Im 25 kDa subunit 1-like [KO:K14397]
108486671  pre-mRNA cleavage factor Im 25 kDa subunit 1-like [KO:K14397]
108461538  pre-mRNA cleavage factor Im 25 kDa subunit 2-like [KO:K14397]
108479213  LOW QUALITY PROTEIN: cleavage and polyadenylation specificity factor subunit CG7185-like [KO:K14398]
108453614  uncharacterized PE-PGRS family protein PE_PGRS54-like [KO:K14398]
108460456  cleavage and polyadenylation specificity factor subunit CG7185 [KO:K14398]
108475450  nuclear poly(A) polymerase 3 isoform X1 [KO:K14376] [EC:2.7.7.19]
108456934  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
108453205  nuclear poly(A) polymerase 1 [KO:K14376] [EC:2.7.7.19]
108450597  nuclear poly(A) polymerase 4-like isoform X1 [KO:K14376] [EC:2.7.7.19]
108455493  nuclear poly(A) polymerase 4-like [KO:K14376] [EC:2.7.7.19]
108458267  protein CLP1 homolog [KO:K14399] [EC:2.7.1.78]
108486438  polyadenylation and cleavage factor homolog 4 isoform X1 [KO:K14400]
108460635  polyadenylation and cleavage factor homolog 4-like [KO:K14400]
108453523  polyadenylation and cleavage factor homolog 4-like [KO:K14400]
108453267  polyadenylation and cleavage factor homolog 4-like isoform X1 [KO:K14400]
108489278  cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
108479498  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
108464316  cleavage and polyadenylation specificity factor subunit 3-I [KO:K14403] [EC:3.1.27.-]
108479519  30-kDa cleavage and polyadenylation specificity factor 30 [KO:K14404]
108486484  homeobox protein 4 [KO:K14404]
108451666  E3 ubiquitin-protein ligase RBBP6-like [KO:K15541]
108450849  E3 ubiquitin-protein ligase RBBP6-like [KO:K15541]
108489265  flowering time control protein FY isoform X1 [KO:K15542]
108487524  WD repeat-containing protein 82 [KO:K14962]
108467723  WD repeat-containing protein 82-B [KO:K14962]
108473075  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
108480369  serine/threonine-protein phosphatase PP1 isozyme 2 isoform X1 [KO:K06269] [EC:3.1.3.16]
108472626  serine/threonine-protein phosphatase PP1 isozyme 9-like [KO:K06269] [EC:3.1.3.16]
108469813  serine/threonine-protein phosphatase PP1 isozyme 9 isoform X1 [KO:K06269] [EC:3.1.3.16]
108486997  serine/threonine-protein phosphatase PP1 isozyme 2 isoform X1 [KO:K06269] [EC:3.1.3.16]
108474824  serine/threonine-protein phosphatase PP1 isozyme 2-like [KO:K06269] [EC:3.1.3.16]
108457248  serine/threonine-protein phosphatase PP1 isozyme 3-like [KO:K06269] [EC:3.1.3.16]
108459241  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
108464289  serine/threonine-protein phosphatase PP1 isozyme 4 [KO:K06269] [EC:3.1.3.16]
108464968  serine/threonine-protein phosphatase PP1 isoform X1 [KO:K06269] [EC:3.1.3.16]
108464433  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
108450475  RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [KO:K15544] [EC:3.1.3.16]
108469521  cleavage stimulation factor subunit 50 isoform X1 [KO:K14406]
108479834  cleavage stimulating factor 64 isoform X1 [KO:K14407]
108486230  cleavage stimulating factor 64-like isoform X1 [KO:K14407]
108486072  cleavage stimulation factor subunit 77 isoform X1 [KO:K14408]
108467197  uncharacterized protein LOC108467197 isoform X1 [KO:K06100]
108452984  uncharacterized protein LOC108452984 isoform X1 [KO:K06100]
108476175  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108479529  heterogeneous nuclear ribonucleoprotein A2 homolog 2 isoform X1 [KO:K14411]
108483540  heterogeneous nuclear ribonucleoprotein 1 isoform X1 [KO:K14411]
108475023  RNA-binding protein 1-like [KO:K14411]
108483911  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108484141  RNA-binding protein 1 [KO:K14411]
108453645  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108470151  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108471207  heterogeneous nuclear ribonucleoprotein 1-like isoform X1 [KO:K14411]
108475912  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108485867  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108489039  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108471132  heterogeneous nuclear ribonucleoprotein 1 isoform X1 [KO:K14411]
108475993  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108453795  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
108463935  heterogeneous nuclear ribonucleoprotein 1-like [KO:K14411]
108483204  polyadenylate-binding protein 2-like [KO:K13126]
108486035  polyadenylate-binding protein 8-like [KO:K13126]
108475983  polyadenylate-binding protein 8-like [KO:K13126]
108489732  polyadenylate-binding protein 6-like isoform X1 [KO:K13126]
108452578  polyadenylate-binding protein 2-like [KO:K13126]
108472838  polyadenylate-binding protein 7-like [KO:K13126]
108456024  polyadenylate-binding protein 7-like [KO:K13126]
108485439  polyadenylate-binding protein 3 [KO:K13126]
108476934  30S ribosomal protein 2, chloroplastic [KO:K13126]
108486430  polyadenylate-binding protein 2-like [KO:K13126]
108483665  polyadenylate-binding protein 2-like isoform X1 [KO:K13126]
108483370  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
108465867  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
108464205  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
108464393  eukaryotic peptide chain release factor subunit 1-3-like [KO:K03265]
108457007  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
108456608  eukaryotic peptide chain release factor GTP-binding subunit ERF3A-like [KO:K03267]
108456989  regulator of nonsense transcripts 1 homolog [KO:K14326] [EC:5.6.2.5 5.6.2.3]
108469767  regulator of nonsense transcripts 1 homolog [KO:K14326] [EC:5.6.2.5 5.6.2.3]
108483064  regulator of nonsense transcripts 1 homolog [KO:K14326] [EC:5.6.2.5 5.6.2.3]
108486160  regulator of nonsense transcripts UPF2 [KO:K14327]
108489099  uncharacterized protein LOC108489099 isoform X1 [KO:K08873] [EC:2.7.11.1]
108457047  protein SMG7 isoform X1 [KO:K14409]
108457482  protein SMG7-like [KO:K14409]
108453047  protein SMG7-like isoform X1 [KO:K14409]
108453255  protein SMG7-like isoform X1 [KO:K14409]
108467200  serine/threonine-protein phosphatase PP2A-3 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108469780  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108476636  serine/threonine-protein phosphatase PP2A catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108466976  serine/threonine-protein phosphatase PP2A-2 catalytic subunit isoform X1 [KO:K04382] [EC:3.1.3.16]
108489960  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108458472  serine/threonine-protein phosphatase PP2A-3 catalytic subunit [KO:K04382] [EC:3.1.3.16]
108460688  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108460796  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
108451238  serine/threonine-protein phosphatase PP2A-2 catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108464331  serine/threonine-protein phosphatase PP2A catalytic subunit-like [KO:K04382] [EC:3.1.3.16]
108479639  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
108467183  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform-like [KO:K03456]
108456738  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
108464346  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
108479170  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like [KO:K04354]
108467089  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
108489606  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
108457210  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
108486387  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like [KO:K04354]
108459668  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
108457470  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform-like isoform X1 [KO:K04354]
108453316  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
108489542  serine/threonine protein phosphatase 2A regulatory subunit B''beta-like isoform X1 [KO:K11583]
108473866  serine/threonine protein phosphatase 2A regulatory subunit B''beta-like [KO:K11583]
108467704  serine/threonine protein phosphatase 2A regulatory subunit B''beta-like [KO:K11583]
108487170  serine/threonine protein phosphatase 2A regulatory subunit B''alpha-like [KO:K11583]
108454246  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
108457330  serine/threonine protein phosphatase 2A regulatory subunit B''alpha-like isoform X1 [KO:K11583]
108463907  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta isoform X1 [KO:K11583]
108473911  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' gamma isoform-like isoform X1 [KO:K11584]
108478491  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108470418  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108481759  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108483910  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' iota isoform-like [KO:K11584]
108477599  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108457053  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
108489793  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' eta isoform-like [KO:K11584]
108456155  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' iota isoform-like [KO:K11584]
108469062  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' iota isoform [KO:K11584]
108473704  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
108457224  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' iota isoform-like [KO:K11584]
108458024  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108464002  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' iota isoform-like [KO:K11584]
108464079  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
108451762  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' gamma isoform-like [KO:K11584]
108460825  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform-like [KO:K11584]
108465034  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform-like [KO:K11584]
108473580  HBS1-like protein isoform X1 [KO:K14416]
108486543  HBS1-like protein isoform X1 [KO:K14416]
108470267  protein PELOTA 1 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
gab03013  Nucleocytoplasmic transport
gab03018  RNA degradation
gab03040  Spliceosome
KO pathway
ko03015   
LinkDB

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