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ONTOLOGY REPORT - ANNOTATIONS

Term:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
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Accession:GO:0000184 term browser browse the term
Definition:The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins.
Synonyms:exact_synonym: mRNA breakdown, nonsense-mediated decay;   mRNA catabolic process, nonsense-mediated;   mRNA catabolism, nonsense-mediated;   mRNA degradation, nonsense-mediated decay;   nonsense-mediated mRNA decay;   nuclear mRNA catabolic process, nonsense-mediated decay
 xref: Reactome:R-HSA-927802 "Nonsense-Mediated Decay (NMD)";   Wikipedia:Nonsense-mediated_decay;   Wikipedia:Nonsense-mediated_mRNA_decay


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nuclear-transcribed mRNA catabolic process, nonsense-mediated decay term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07037800.1 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 Ensembl chr  X:29,333,112...29,334,044 JBrowse link
G Casc3 CASC3 exon junction complex subunit involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr10:83,769,014...83,788,966
Ensembl chr10:83,769,001...83,788,966 		JBrowse link
G Ctif cap binding complex dependent translation initiation factor involved_in ISO (PMID:19648179) RGD PMID:19648179 NCBI chr18:69,056,151...69,327,454
Ensembl chr18:69,059,519...69,327,385 		JBrowse link
G Dcp1a decapping mRNA 1A involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr16:5,656,960...5,702,151
Ensembl chr16:5,656,773...5,702,140 		JBrowse link
G Dcp1b decapping mRNA 1B involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 4:152,358,267...152,395,747
Ensembl chr 4:152,358,241...152,397,145 		JBrowse link
G Dcp2 decapping mRNA 2 involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr18:36,750,732...36,787,067
Ensembl chr18:36,750,732...36,788,557 		JBrowse link
G Eif3e eukaryotic translation initiation factor 3 subunit E involved_in ISS
ISO		 GO_REF:0000024
(PMID:17468741)		 UniProt
RGD		 PMID:17468741 GO_REF:0000024 NCBI chr 7:74,339,848...74,372,483
Ensembl chr 7:74,339,828...74,373,096 		JBrowse link
G Eif4a3 eukaryotic translation initiation factor 4A3 involved_in ISO (PMID:16209946) RGD PMID:16209946 NCBI chr10:104,549,038...104,559,032
Ensembl chr10:104,549,038...104,559,057 		JBrowse link
G Etf1 eukaryotic translation termination factor 1 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr18:26,502,413...26,530,753
Ensembl chr18:26,504,080...26,530,810 		JBrowse link
G Exosc10 exosome component 10 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 5:158,995,313...159,018,940
Ensembl chr 5:158,995,313...159,018,940 		JBrowse link
G Magoh mago homolog, exon junction complex subunit involved_in ISO
IEA		 UniProtKB:Q96A72 (PMID:16209946), (PMID:23917022)
GO_REF:0000107		 RGD
Ensembl		 PMID:16209946 PMID:23917022 GO_REF:0000107 NCBI chr 5:122,639,268...122,646,650
Ensembl chr 5:122,639,308...122,646,617 		JBrowse link
G Magohb mago homolog B, exon junction complex subunit involved_in ISO UniProtKB:P61326 (PMID:23917022) RGD PMID:23917022 NCBI chr 4:165,034,131...165,041,977
Ensembl chr 4:165,034,122...165,041,967 		JBrowse link
G Ncbp1 nuclear cap binding protein subunit 1 involved_in ISO
IBA
ISS		 (PMID:11551508), (PMID:17873884), (PMID:18369367)
GO_REF:0000033
GO_REF:0000024		 RGD
GO_Central
UniProt		 PMID:11551508 PMID:17873884 PMID:18369367 GO_REF:0000024 GO_REF:0000033 NCBI chr 5:60,416,023...60,449,004
Ensembl chr 5:60,415,982...60,449,089 		JBrowse link
G Ncbp2 nuclear cap binding protein subunit 2 involved_in ISO
IEA		 (PMID:11551508), (PMID:17873884), (PMID:18369367)
GO_REF:0000043
GO_REF:0000107		 RGD
UniProt
Ensembl		 PMID:11551508 PMID:17873884 PMID:18369367 GO_REF:0000043 GO_REF:0000107 NCBI chr11:68,821,026...68,829,863
Ensembl chr11:68,817,740...68,851,885 		JBrowse link
G Pabpc1 poly(A) binding protein, cytoplasmic 1 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 7:67,777,438...67,789,731
Ensembl chr 7:67,777,381...67,789,744 		JBrowse link
G Pnrc1 proline-rich nuclear receptor coactivator 1 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 5:47,647,070...47,657,832
Ensembl chr 5:47,647,071...47,650,161 		JBrowse link
G Pnrc2 proline-rich nuclear receptor coactivator 2 involved_in ISO
IBA
ISS		 (PMID:19150429)
GO_REF:0000033
GO_REF:0000024		 RGD
GO_Central
UniProt		 PMID:19150429 GO_REF:0000024 GO_REF:0000033 NCBI chr 5:148,103,966...148,106,950
Ensembl chr 5:148,095,699...148,107,242
Ensembl chr 5:148,095,699...148,107,242 		JBrowse link
G Pym1 PYM homolog 1, exon junction complex associated factor involved_in ISO (PMID:19410547) RGD PMID:19410547 NCBI chr 7:1,177,746...1,200,899
Ensembl chr 7:1,178,008...1,198,937 		JBrowse link
G Rbm8a RNA binding motif protein 8A involved_in ISO (PMID:16209946) RGD PMID:16209946 NCBI chr 2:184,165,189...184,167,959
Ensembl chr 2:184,165,193...184,167,959 		JBrowse link
G Rnps1 RNA binding protein with serine rich domain 1 involved_in ISO
IEA		 (PMID:11546874), (PMID:16209946)
GO_REF:0000043		 RGD
UniProt		 PMID:11546874 PMID:16209946 GO_REF:0000043 NCBI chr10:13,445,516...13,455,858
Ensembl chr10:13,445,653...13,455,858 		JBrowse link
G Rnps1-ps5 RNA binding protein with serine rich domain 1, pseudogene 5 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 5:24,630,410...24,632,144
Ensembl chr 5:24,630,135...24,631,316 		JBrowse link
G Smg1 SMG1, nonsense mediated mRNA decay associated PI3K related kinase involved_in ISO
IBA		 (PMID:11544179)
GO_REF:0000033		 RGD
GO_Central		 PMID:11544179 GO_REF:0000033 NCBI chr 1:172,441,892...172,543,667
Ensembl chr 1:172,444,936...172,543,698 		JBrowse link
G Smg5 SMG5 nonsense mediated mRNA decay factor involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 2:173,804,987...173,832,102
Ensembl chr 2:173,805,019...173,832,102 		JBrowse link
G Smg5l1 Smg5 nonsense mediated mRNA decay factor like 1 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 7:75,917,527...76,051,832
Ensembl chr 7:75,917,392...76,052,413 		JBrowse link
G Smg6 SMG6 nonsense mediated mRNA decay factor involved_in ISO
IBA		 (PMID:18974281), (PMID:19060897), (PMID:20930030)
GO_REF:0000033		 RGD
GO_Central		 PMID:18974281 PMID:19060897 PMID:20930030 GO_REF:0000033 NCBI chr10:59,786,258...60,014,395
Ensembl chr10:59,786,258...60,014,395 		JBrowse link
G Smg7 SMG7 nonsense mediated mRNA decay factor involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr13:64,986,145...65,050,698
Ensembl chr13:64,987,434...65,050,582 		JBrowse link
G Smg8 SMG8 nonsense mediated mRNA decay factor involved_in ISO
IBA		 (PMID:19417104)
GO_REF:0000033		 RGD
GO_Central		 PMID:19417104 GO_REF:0000033 NCBI chr10:71,886,742...71,895,776
Ensembl chr10:71,886,744...71,895,760 		JBrowse link
G Smg9 SMG9 nonsense mediated mRNA decay factor involved_in ISS
IBA
IEA
ISO		 GO_REF:0000024
GO_REF:0000033
GO_REF:0000107
(PMID:19417104)		 UniProt
GO_Central
Ensembl
RGD		 PMID:19417104 GO_REF:0000024 GO_REF:0000033 GO_REF:0000107 NCBI chr 1:79,988,540...80,011,262
Ensembl chr 1:79,988,612...80,011,254 		JBrowse link
G Thrap3 thyroid hormone receptor associated protein 3 involved_in IEA GO_REF:0000043 UniProt GO_REF:0000043 NCBI chr 5:138,445,284...138,487,544
Ensembl chr 5:138,445,295...138,487,477 		JBrowse link
G Upf1 UPF1, RNA helicase and ATPase involved_in ISO
IBA		 (PMID:17468741), (PMID:18369367)
GO_REF:0000033		 RGD
GO_Central		 PMID:17468741 PMID:18369367 GO_REF:0000033 NCBI chr16:19,076,594...19,097,365
Ensembl chr16:19,076,322...19,096,568 		JBrowse link
G Upf2 UPF2, regulator of nonsense mediated mRNA decay involved_in ISO
IBA		 (PMID:18369367), (PMID:19556969)
GO_REF:0000033		 RGD
GO_Central		 PMID:18369367 PMID:19556969 GO_REF:0000033 NCBI chr17:72,224,575...72,335,896
Ensembl chr17:72,225,316...72,335,855 		JBrowse link
G Upf3a UPF3A, regulator of nonsense mediated mRNA decay NOT|involved_in ISO (PMID:16601204) RGD PMID:16601204 NCBI chr16:75,757,442...75,768,478
Ensembl chr16:75,757,441...75,769,345 		JBrowse link
G Upf3b UPF3B, regulator of nonsense mediated mRNA decay involved_in
acts_upstream_of_or_within		 ISO
IBA		 (PMID:16601204), (PMID:18369367)
(PMID:23821644)
GO_REF:0000033		 RGD
GO_Central		 PMID:16601204 PMID:18369367 PMID:23821644 GO_REF:0000033 NCBI chr  X:116,335,308...116,353,332
Ensembl chr  X:116,335,308...116,353,236 		JBrowse link
negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G A1cf APOBEC1 complementation factor involved_in ISO (PMID:12881431) RGD PMID:12881431 NCBI chr 1:229,736,037...229,823,499
Ensembl chr 1:229,736,106...229,824,354 		JBrowse link
G Apobec1 apolipoprotein B mRNA editing enzyme catalytic subunit 1 involved_in ISO
IEA		 (PMID:12881431)
GO_REF:0000107		 RGD
Ensembl		 PMID:12881431 GO_REF:0000107 NCBI chr 4:155,800,030...155,828,515
Ensembl chr 4:155,800,887...155,827,390 		JBrowse link
G Dhx34 DExH-box helicase 34 involved_in ISO (PMID:23828042) RGD PMID:23828042 NCBI chr 1:76,880,867...76,905,148
Ensembl chr 1:76,880,867...76,905,113 		JBrowse link
G Hnrnpab heterogeneous nuclear ribonucleoprotein A/B involved_in ISO (PMID:12881431) RGD PMID:12881431 NCBI chr10:35,857,040...35,862,935
Ensembl chr10:35,857,041...35,863,344 		JBrowse link
G Nbas NBAS subunit of NRZ tethering complex involved_in ISO (PMID:23828042) RGD PMID:23828042 NCBI chr 6:36,048,357...36,353,206
Ensembl chr 6:36,048,191...36,352,984 		JBrowse link
G Pabpc1 poly(A) binding protein, cytoplasmic 1 involved_in ISO
ISS		 (PMID:18447585)
GO_REF:0000024		 RGD
UniProt		 PMID:18447585 GO_REF:0000024 NCBI chr 7:67,777,438...67,789,731
Ensembl chr 7:67,777,381...67,789,744 		JBrowse link
G Secisbp2 SECIS binding protein 2 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:4433050 (PMID:24274065)		 Ensembl
RGD		 PMID:24274065 GO_REF:0000107 NCBI chr17:13,538,513...13,569,573
Ensembl chr17:13,538,513...13,569,523 		JBrowse link
G Syncrip synaptotagmin binding, cytoplasmic RNA interacting protein involved_in ISO (PMID:12881431) RGD PMID:12881431 NCBI chr 8:89,402,487...89,435,517
Ensembl chr 8:89,402,866...89,435,515 		JBrowse link
G Upf3a UPF3A, regulator of nonsense mediated mRNA decay involved_in ISO MGI:107995|MGI:1915384 (PMID:27040500) RGD PMID:27040500 NCBI chr16:75,757,442...75,768,478
Ensembl chr16:75,757,441...75,769,345 		JBrowse link
nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Skic2 SKI2 subunit of superkiller complex involved_in ISO
IBA		 (PMID:32006463), (PMID:35120588)
GO_REF:0000033		 RGD
GO_Central		 PMID:32006463 PMID:35120588 GO_REF:0000033 NCBI chr20:3,982,494...3,993,261
Ensembl chr20:3,982,593...3,993,261 		JBrowse link
G Skic3 SKI3 subunit of superkiller complex involved_in ISO (PMID:32006463), (PMID:35120588) RGD PMID:32006463 PMID:35120588 NCBI chr 2:5,631,544...5,783,643
Ensembl chr 2:5,631,635...5,751,626 		JBrowse link
G Skic8 SKI8 subunit of superkiller complex involved_in ISO
ISS
IEA		 (PMID:32006463), (PMID:35120588)
GO_REF:0000024
GO_REF:0000107		 RGD
UniProt
Ensembl		 PMID:32006463 PMID:35120588 GO_REF:0000024 GO_REF:0000107 NCBI chr 8:55,103,542...55,120,837
Ensembl chr 8:55,103,545...55,120,813 		JBrowse link
regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Casc3 CASC3 exon junction complex subunit involved_in ISO
IEA		 (PMID:19478851)
GO_REF:0000107		 RGD
Ensembl		 PMID:19478851 GO_REF:0000107 NCBI chr10:83,769,014...83,788,966
Ensembl chr10:83,769,001...83,788,966 		JBrowse link
G Eif4a3 eukaryotic translation initiation factor 4A3 involved_in ISO (PMID:19478851) RGD PMID:19478851 NCBI chr10:104,549,038...104,559,032
Ensembl chr10:104,549,038...104,559,057 		JBrowse link
G Magoh mago homolog, exon junction complex subunit involved_in ISO
IEA		 (PMID:19478851)
GO_REF:0000107		 RGD
Ensembl		 PMID:19478851 GO_REF:0000107 NCBI chr 5:122,639,268...122,646,650
Ensembl chr 5:122,639,308...122,646,617 		JBrowse link
G Rbm8a RNA binding motif protein 8A involved_in ISO (PMID:19478851) RGD PMID:19478851 NCBI chr 2:184,165,189...184,167,959
Ensembl chr 2:184,165,193...184,167,959 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20535
    cellular process 19524
      metabolic process 12166
        macromolecule metabolic process 9988
          nucleic acid metabolic process 5328
            RNA metabolic process 4746
              RNA catabolic process 390
                mRNA catabolic process 340
                  nuclear-transcribed mRNA catabolic process 124
                    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 43
                      negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 9
                      nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay 3
                      nuclear-transcribed mRNA catabolic process, 5'-3' exonucleolytic nonsense-mediated decay 0
                      positive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 0
                      regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay + 13
Path 2
Term Annotations click to browse term
  biological_process 20535
    biological regulation 13817
      regulation of biological process 13372
        regulation of cellular process 13010
          negative regulation of cellular process 5582
            negative regulation of metabolic process 3153
              negative regulation of biosynthetic process 2545
                negative regulation of macromolecule biosynthetic process 2453
                  negative regulation of gene expression 1387
                    mRNA catabolic process 340
                      nuclear-transcribed mRNA catabolic process 124
                        nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 43
                          negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 9
                          nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay 3
                          nuclear-transcribed mRNA catabolic process, 5'-3' exonucleolytic nonsense-mediated decay 0
                          positive regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay 0
                          regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay + 13
paths to the root