ENTRY       gmx03015                    Pathway
NAME        mRNA surveillance pathway - Glycine max (soybean)
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 gmx03015  mRNA surveillance pathway
DBLINKS     GO: 0071028
ORGANISM    Glycine max (soybean) [GN:gmx]
GENE        100791079  nuclear cap-binding protein subunit 1 [KO:K12882]
            100811738  nuclear cap-binding protein subunit 1 [KO:K12882]
            100789535  nuclear cap-binding protein subunit 2-like protein [KO:K12883]
            100776217  nuclear cap-binding protein subunit 2 [KO:K12883]
            100795376  regulator of nonsense transcripts UPF3 isoform X8 [KO:K14328]
            100799816  regulator of nonsense transcripts UPF3 [KO:K14328]
            100801152  regulator of nonsense transcripts UPF3-like isoform X1 [KO:K14328]
            100798866  regulator of nonsense transcripts UPF3 [KO:K14328]
            100527187  uncharacterized protein LOC100527187 [KO:K12876]
            100778595  RNA-binding protein Y14 [KO:K12876]
            100804377  RNA-binding protein Y14 [KO:K12876]
            100499908  protein mago nashi homolog isoform 1 [KO:K12877]
            100305742  protein mago nashi-like [KO:K12877]
            100813864  protein mago nashi homolog 2 [KO:K12877]
            100800020  eukaryotic initiation factor 4A-3 [KO:K13025] [EC:3.6.4.13]
            100795032  eukaryotic initiation factor 4A-3 [KO:K13025] [EC:3.6.4.13]
            100526922  uncharacterized protein LOC100526922 [KO:K14324]
            100784572  histone deacetylase complex subunit SAP18-like [KO:K14324]
            100801229  pinin isoform X1 [KO:K13114]
            100801958  pinin isoform X1 [KO:K13114]
            100816245  apoptotic chromatin condensation inducer in the nucleus isoform X1 [KO:K12875]
            100786288  apoptotic chromatin condensation inducer in the nucleus [KO:K12875]
            100804778  serine/arginine-rich splicing factor SR45 [KO:K14325]
            100783566  serine/arginine-rich splicing factor SR45 [KO:K14325]
            100785926  THO complex subunit 4B isoform X2 [KO:K12881]
            100820344  THO complex subunit 4D isoform X1 [KO:K12881]
            100817317  THO complex subunit 4A [KO:K12881]
            100801491  THO complex subunit 4D [KO:K12881]
            100783362  THO complex subunit 4A [KO:K12881]
            100775827  THO complex subunit 4A [KO:K12881]
            100784739  DEAD-box ATP-dependent RNA helicase 38 [KO:K18655] [EC:3.6.4.13]
            100778091  DEAD-box ATP-dependent RNA helicase 38 [KO:K18655] [EC:3.6.4.13]
            100802744  protein GLE1 isoform X1 [KO:K18723]
            100785358  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:3.6.4.13]
            100799082  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:3.6.4.13]
            100808957  DEAD-box ATP-dependent RNA helicase 15 [KO:K12812] [EC:3.6.4.13]
            100796232  DEAD-box ATP-dependent RNA helicase 15 isoform X2 [KO:K12812] [EC:3.6.4.13]
            100791525  partner of Y14 and mago [KO:K14294]
            100820219  partner of Y14 and mago [KO:K14294]
            100790051  serine/arginine repetitive matrix protein 1 isoform X1 [KO:K13171]
            100810238  serine/arginine repetitive matrix protein 1 [KO:K13171]
            100803597  mRNA-capping enzyme isoform X1 [KO:K13917] [EC:2.7.7.50 3.6.1.74]
            100776633  mRNA-capping enzyme [KO:K13917] [EC:2.7.7.50 3.6.1.74]
            100817375  S-adenosyl-L-methionine-dependent methyltransferase superfamily protein [KO:K00565] [EC:2.1.1.56]
            100783006  mRNA cap guanine-N7 methyltransferase 1 [KO:K00565] [EC:2.1.1.56]
            100779811  mRNA cap guanine-N7 methyltransferase 1 [KO:K00565] [EC:2.1.1.56]
            100810904  mRNA cap guanine-N7 methyltransferase 2 isoform X1 [KO:K00565] [EC:2.1.1.56]
            100819953  transcription initiation factor TFIID subunit 15b [KO:K13098]
            100782124  transcription initiation factor TFIID subunit 15b [KO:K13098]
            100813547  transcription initiation factor TFIID subunit 15b [KO:K13098]
            100778472  transcription initiation factor TFIID subunit 15b [KO:K13098]
            100527139  RNA recognition motif-containing protein [KO:K14396]
            100527545  RRM domain-containing protein [KO:K14396]
            100784473  uncharacterized protein LOC100784473 [KO:K14396]
            100789721  polyadenylate-binding protein 2 isoform X1 [KO:K14396]
            100791351  polyadenylate-binding protein 2-like [KO:K14396]
            100809403  polyadenylate-binding protein 2 [KO:K14396]
            100306068  uncharacterized protein LOC100306068 [KO:K14397]
            100791216  cleavage factor CFIM-25-like protein [KO:K14397]
            100811056  uncharacterized PE-PGRS family protein PE_PGRS46 [KO:K14398]
            100813702  cleavage and polyadenylation specificity factor subunit 6 [KO:K14398]
            100782869  cleavage and polyadenylation specificity factor subunit 6 [KO:K14398]
            100813748  uncharacterized PE-PGRS family protein PE_PGRS46 [KO:K14398]
            100816915  nuclear poly(A) polymerase 1 [KO:K14376] [EC:2.7.7.19]
            100802620  nuclear poly(A) polymerase 4 isoform X2 [KO:K14376] [EC:2.7.7.19]
            100783237  nuclear poly(A) polymerase 4 [KO:K14376] [EC:2.7.7.19]
            100798218  nuclear poly(A) polymerase 4 isoform X1 [KO:K14376] [EC:2.7.7.19]
            100819294  nuclear poly(A) polymerase 4 isoform X1 [KO:K14376] [EC:2.7.7.19]
            100815801  nuclear poly(A) polymerase 1 isoform X2 [KO:K14376] [EC:2.7.7.19]
            100780061  protein CLP1 homolog [KO:K14399] [EC:2.7.1.78]
            100805248  uncharacterized protein LOC100805248 [KO:K14399] [EC:2.7.1.78]
            100811629  polyadenylation and cleavage factor homolog 4 [KO:K14400]
            100807857  polyadenylation and cleavage factor homolog 4 [KO:K14400]
            100794796  polyadenylation and cleavage factor homolog 4 [KO:K14400]
            100787354  polyadenylation and cleavage factor homolog 4 [KO:K14400]
            100788958  polyadenylation and cleavage factor homolog 4 isoform X1 [KO:K14400]
            102662711  polyadenylation and cleavage factor homolog 4 [KO:K14400]
            100801803  cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
            100785543  cleavage and polyadenylation specificity factor subunit 1 isoform X1 [KO:K14401]
            100796817  cleavage and polyadenylation specificity factor subunit 2 [KO:K14402]
            100777002  cleavage and polyadenylation specificity factor subunit 2 isoform X1 [KO:K14402]
            100813876  cleavage and polyadenylation specificity factor subunit 3-I [KO:K14403] [EC:3.1.27.-]
            100806136  cleavage and polyadenylation specificity factor subunit 3-I [KO:K14403] [EC:3.1.27.-]
            100802826  30-kDa cleavage and polyadenylation specificity factor 30 [KO:K14404]
            100787159  30-kDa cleavage and polyadenylation specificity factor 30 [KO:K14404]
            100786384  uncharacterized protein LOC100786384 [KO:K14404]
            100789443  uncharacterized protein LOC100789443 [KO:K14404]
            100791889  flowering time control protein FY isoform X1 [KO:K15542]
            100788493  flowering time control protein FY isoform X1 [KO:K15542]
            100776353  uncharacterized protein LOC100776353 [KO:K14962]
            100814231  protein ANTHESIS POMOTING FACTOR 1 isoform X2 [KO:K14962]
            100810444  protein ANTHESIS POMOTING FACTOR 1 isoform X1 [KO:K14962]
            100807825  protein ANTHESIS POMOTING FACTOR 1 [KO:K14962]
            100811593  uncharacterized protein LOC100811593 [KO:K06269] [EC:3.1.3.16]
            100783178  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
            100799218  uncharacterized protein LOC100799218 [KO:K06269] [EC:3.1.3.16]
            100790490  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100803420  serine/threonine-protein phosphatase PP1 isoform X2 [KO:K06269] [EC:3.1.3.16]
            100804212  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100807069  uncharacterized protein LOC100807069 [KO:K06269] [EC:3.1.3.16]
            100794578  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100808597  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100816262  serine/threonine-protein phosphatase PP1-like isoform 2 [KO:K06269] [EC:3.1.3.16]
            100813792  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100805030  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100813763  serine/threonine-protein phosphatase PP1-like [KO:K06269] [EC:3.1.3.16]
            100791655  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100780047  serine/threonine-protein phosphatase PP1 [KO:K06269] [EC:3.1.3.16]
            100306388  uncharacterized protein LOC100306388 [KO:K15544] [EC:3.1.3.16]
            100809908  cleavage stimulation factor subunit 50 [KO:K14406]
            100794399  cleavage stimulating factor 64 [KO:K14407]
            100806489  cleavage stimulating factor 64 isoform X2 [KO:K14407]
            100799377  cleavage stimulation factor subunit 77 isoform X1 [KO:K14408]
            100789876  uncharacterized protein LOC100789876 isoform X1 [KO:K06100]
            100779360  uncharacterized protein LOC100779360 isoform X3 [KO:K06100]
            100776979  uncharacterized protein LOC100776979 isoform X1 [KO:K06100]
            100810420  uncharacterized protein LOC100810420 isoform X3 [KO:K06100]
            100811267  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100786665  RNA-binding protein 1 [KO:K14411]
            100816822  RNA-binding protein 1 [KO:K14411]
            100808084  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100795240  DAZ-associated protein 1 [KO:K14411]
            100814628  heterogeneous nuclear ribonucleoprotein 1 isoform X2 [KO:K14411]
            100794390  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100788515  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100799330  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100795907  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100805131  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            100786882  heterogeneous nuclear ribonucleoprotein 1 [KO:K14411]
            102670015  RNA-binding protein 1 [KO:K14411]
            100811385  polyadenylate-binding protein 2 [KO:K13126]
            100778879  polyadenylate-binding protein 8 [KO:K13126]
            100799386  polyadenylate-binding protein 8 isoform X1 [KO:K13126]
            100798998  polyadenylate-binding protein 3 [KO:K13126]
            100807057  polyadenylate-binding protein 7 [KO:K13126]
            100798828  polyadenylate-binding protein 7 isoform X1 [KO:K13126]
            100804671  polyadenylate-binding protein 7 [KO:K13126]
            100779547  polyadenylate-binding protein 7 [KO:K13126]
            100811197  uncharacterized protein LOC100811197 [KO:K13126]
            100780329  polyadenylate-binding protein 2 [KO:K13126]
            100783567  uncharacterized protein LOC100783567 [KO:K13126]
            100784442  polyadenylate-binding protein 2 [KO:K13126]
            100813735  polyadenylate-binding protein 2 [KO:K13126]
            100783163  polyadenylate-binding protein 3 [KO:K13126]
            100808877  polyadenylate-binding protein 2 [KO:K13126]
            100786788  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
            100813343  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
            100785916  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
            106796341  LOW QUALITY PROTEIN: eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
            100775731  eukaryotic peptide chain release factor subunit 1-3 [KO:K03265]
            100793653  eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X2 [KO:K03267]
            100784412  eukaryotic peptide chain release factor GTP-binding subunit ERF3A isoform X4 [KO:K03267]
            100786092  regulator of nonsense transcripts UPF2 [KO:K14327]
            100795746  LOW QUALITY PROTEIN: regulator of nonsense transcripts UPF2 [KO:K14327]
            100808763  serine/threonine-protein kinase SMG1 [KO:K08873] [EC:2.7.11.1]
            100779982  protein SMG7 [KO:K14409]
            100787602  protein SMG7 [KO:K14409]
            100783950  serine/threonine-protein phosphatase PP2A-5 catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100784312  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100794029  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100801108  serine/threonine-protein phosphatase PP2A-4 catalytic subunit isoform X1 [KO:K04382] [EC:3.1.3.16]
            100807329  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100798408  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100817449  serine/threonine-protein phosphatase PP2A-4 catalytic subunit isoform X1 [KO:K04382] [EC:3.1.3.16]
            100782279  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100775812  serine/threonine-protein phosphatase PP2A catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100812326  serine/threonine-protein phosphatase PP2A-2 catalytic subunit [KO:K04382] [EC:3.1.3.16]
            100796862  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
            100781098  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
            100819623  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
            100811658  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
            100799440  serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A beta isoform [KO:K03456]
            100789058  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X2 [KO:K04354]
            100786941  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X2 [KO:K04354]
            100795137  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X1 [KO:K04354]
            100799449  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X2 [KO:K04354]
            100790801  serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B beta isoform isoform X2 [KO:K04354]
            100789934  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
            100793000  serine/threonine protein phosphatase 2A regulatory subunit B''beta isoform X1 [KO:K11583]
            100807531  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta [KO:K11583]
            100792998  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta isoform X1 [KO:K11583]
            100815724  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta [KO:K11583]
            100799748  probable serine/threonine protein phosphatase 2A regulatory subunit B''delta isoform X1 [KO:K11583]
            100801001  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
            100776298  probable serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit TON2 [KO:K11583]
            100798308  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform [KO:K11584]
            100775767  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' gamma isoform [KO:K11584]
            100795277  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform [KO:K11584]
            100802007  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform [KO:K11584]
            100811438  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' eta isoform [KO:K11584]
            100775273  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
            100795156  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform [KO:K11584]
            100814349  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
            100808283  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
            100781390  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform isoform X1 [KO:K11584]
            100814538  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform [KO:K11584]
            100814863  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform [KO:K11584]
            100788774  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform [KO:K11584]
            100785874  serine/threonine protein phosphatase 2A 59 kDa regulatory subunit B' gamma isoform [KO:K11584]
            100786778  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
            100798842  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' beta isoform isoform X2 [KO:K11584]
            100797758  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform [KO:K11584]
            100806230  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' kappa isoform [KO:K11584]
            100807697  serine/threonine protein phosphatase 2A 57 kDa regulatory subunit B' theta isoform [KO:K11584]
            100798594  HBS1-like protein isoform X2 [KO:K14416]
            100801724  elongation factor 1-alpha isoform X1 [KO:K14416]
            100793935  uncharacterized protein LOC100793935 [KO:K06965]
            100800939  protein PELOTA 1 [KO:K06965]
            100803618  protein PELOTA 1 [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
REL_PATHWAY gmx03013  Nucleocytoplasmic transport
            gmx03018  RNA degradation
            gmx03040  Spliceosome
KO_PATHWAY  ko03015
///
