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ONTOLOGY REPORT - ANNOTATIONS

Term:DNA catabolic process
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Accession:GO:0006308 term browser browse the term
Definition:The cellular DNA metabolic process resulting in the breakdown of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one.
Synonyms:exact_synonym: DNA breakdown;   DNA catabolism;   DNA degradation


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DNA catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Apex1 apurinic/apyrimidinic endodeoxyribonuclease 1 involved_in ISO
IEA		 (PMID:1627644)
GO_REF:0000107		 RGD
Ensembl		 PMID:1627644 GO_REF:0000107 NCBI chr15:24,144,595...24,146,785
Ensembl chr15:24,144,362...24,146,785 		JBrowse link
G Dffb DNA fragmentation factor subunit beta involved_in ISO (PMID:19944011) RGD PMID:19944011 NCBI chr 5:164,522,446...164,534,733
Ensembl chr 5:164,522,463...164,534,628 		JBrowse link
G Dnase1 deoxyribonuclease 1 involved_in ISS
IBA
ISO		 PMID:29191910
GO_REF:0000033
(MGI:6094744|PMID:29191910)		 GO_Central
RGD		 PMID:29191910 PMID:29191910 GO_REF:0000033 MGI:6094744, RGD:13464261 NCBI chr10:11,498,930...11,505,151
Ensembl chr10:11,498,931...11,501,869 		JBrowse link
G Dnase1l1 deoxyribonuclease 1-like 1 involved_in IEA
IBA		 GO_REF:0000002
GO_REF:0000033		 InterPro
GO_Central		 GO_REF:0000002 GO_REF:0000033 NCBI chr  X:152,056,942...152,065,518
Ensembl chr  X:152,056,942...152,065,518 		JBrowse link
G Dnase1l2 deoxyribonuclease 1 like 2 involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:5308556 (PMID:21307874)		 GO_Central
RGD		 PMID:21307874 GO_REF:0000033 NCBI chr10:13,471,850...13,473,447
Ensembl chr10:13,471,479...13,473,763 		JBrowse link
G Dnase1l3 deoxyribonuclease 1L3 involved_in ISS
IEA
ISO		 PMID:29191910
GO_REF:0000002
(MGI:6094744|PMID:29191910)		 InterPro
RGD		 PMID:29191910 PMID:29191910 GO_REF:0000002 MGI:6094744, RGD:13464261 NCBI chr15:16,922,335...16,948,322
Ensembl chr15:16,922,335...16,948,317 		JBrowse link
G Dnase2 deoxyribonuclease 2, lysosomal acts_upstream_of_or_within ISO MGI:2449811 (PMID:15568025), (PMID:18991290) RGD PMID:15568025 PMID:18991290 NCBI chr19:23,244,656...23,247,376
Ensembl chr19:23,244,664...23,247,376 		JBrowse link
G Fbh1 F-box DNA helicase 1 acts_upstream_of_or_within ISO (PMID:23361013) RGD PMID:23361013 NCBI chr17:66,749,506...66,787,590
Ensembl chr17:66,749,534...66,787,590 		JBrowse link
G Isg20 interferon stimulated exonuclease gene 20 involved_in ISO
IBA		 (PMID:11401564)
GO_REF:0000033		 RGD
GO_Central		 PMID:11401564 GO_REF:0000033 NCBI chr 1:132,829,303...132,837,027
Ensembl chr 1:132,815,123...132,837,027 		JBrowse link
G Mus81 MUS81 structure-specific endonuclease subunit acts_upstream_of_or_within
involved_in		 ISO
IEA		 (PMID:23361013)
GO_REF:0000104		 RGD
UniProt		 PMID:23361013 GO_REF:0000104 NCBI chr 1:202,790,295...202,796,008
Ensembl chr 1:202,790,466...202,795,843 		JBrowse link
G Rexo4 REX4 homolog, 3'-5' exonuclease involved_in ISO
IBA		 (PMID:21602889)
GO_REF:0000033		 RGD
GO_Central		 PMID:21602889 GO_REF:0000033 NCBI chr 3:10,280,654...10,291,003
Ensembl chr 3:10,280,654...10,290,996 		JBrowse link
G Setmar SET domain and mariner transposase fusion gene involved_in ISO (PMID:20521842), (PMID:21491884), (PMID:24573677) RGD PMID:20521842 PMID:21491884 PMID:24573677 NCBI chr 4:141,046,058...141,058,183
Ensembl chr 4:141,046,069...141,058,197 		JBrowse link
G Trex1 three prime repair exonuclease 1 acts_upstream_of_or_within
involved_in		 ISO
IBA		 MGI:3052754|MGI:5751220 (PMID:18724932), (PMID:19923437), (PMID:20871604), (PMID:23993650), (PMID:25848017)
GO_REF:0000033		 RGD
GO_Central		 PMID:18724932 PMID:19923437 PMID:20871604 PMID:23993650 PMID:25848017 GO_REF:0000033 NCBI chr 8:109,706,613...109,707,913
Ensembl chr 8:109,706,613...109,708,796 		JBrowse link
G Trex2 three prime repair exonuclease 2 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr  X:151,151,862...151,153,470
Ensembl chr  X:151,151,864...151,153,479 		JBrowse link
apoptotic DNA fragmentation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dffa DNA fragmentation factor subunit alpha involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 5:159,540,715...159,553,639
Ensembl chr 5:159,540,715...159,553,633 		JBrowse link
G Dffb DNA fragmentation factor subunit beta involved_in
acts_upstream_of_or_within		 IDA
IBA
IEA
ISO		 GO_REF:0000033
GO_REF:0000002
(PMID:15572351)
(PMID:22253444)
GO_REF:0000107		 GO_Central
InterPro
RGD
Ensembl		 PMID:15572351 PMID:22253444 PMID:11425895 GO_REF:0000002 GO_REF:0000033 GO_REF:0000107, RGD:628524 NCBI chr 5:164,522,446...164,534,733
Ensembl chr 5:164,522,463...164,534,628 		JBrowse link
G Dicer1 dicer 1 ribonuclease III involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:123,627,529...123,692,278
Ensembl chr 6:123,631,250...123,693,965 		JBrowse link
G Dnase1l3 deoxyribonuclease 1L3 acts_upstream_of_or_within
involved_in		 TAS
ISO
IBA		 (PMID:12050166)
GO_REF:0000033
(PMID:23229555)		 RGD
GO_Central		 PMID:12050166 PMID:23229555 PMID:9665719 GO_REF:0000033, RGD:728743 NCBI chr15:16,922,335...16,948,322
Ensembl chr15:16,922,335...16,948,317 		JBrowse link
G Dnase2 deoxyribonuclease 2, lysosomal involved_in IEA
IBA		 GO_REF:0000104
GO_REF:0000033		 UniProt
GO_Central		 GO_REF:0000033 GO_REF:0000104 NCBI chr19:23,244,656...23,247,376
Ensembl chr19:23,244,664...23,247,376 		JBrowse link
G Dnase2b deoxyribonuclease 2 beta involved_in IEA
IBA		 GO_REF:0000104
GO_REF:0000033		 UniProt
GO_Central		 GO_REF:0000033 GO_REF:0000104 NCBI chr 2:235,470,915...235,515,211
Ensembl chr 2:235,470,919...235,486,295 		JBrowse link
G Endog endonuclease G involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:3034030|MGI:3514265 (PMID:14663139)		 GO_Central
RGD		 PMID:14663139 GO_REF:0000033 NCBI chr 3:13,449,113...13,451,715
Ensembl chr 3:13,449,086...13,451,932 		JBrowse link
G Exog exo/endonuclease G involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 8:119,184,974...119,204,819
Ensembl chr 8:119,185,136...119,204,672 		JBrowse link
G Foxl2 forkhead box L2 involved_in ISO (PMID:16153597) RGD PMID:16153597 NCBI chr 8:99,512,971...99,514,500
Ensembl chr 8:99,513,303...99,514,427 		JBrowse link
G Vps54 VPS54 subunit of GARP complex involved_in IEA
ISO		 GO_REF:0000107
MGI:1857091 (PMID:11403940)		 Ensembl
RGD		 PMID:11403940 GO_REF:0000107 NCBI chr14:95,378,821...95,455,871
Ensembl chr14:95,378,012...95,455,857 		JBrowse link
mitochondrial DNA catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Endog endonuclease G involved_in ISO (PMID:29719607) RGD PMID:29719607 NCBI chr 3:13,449,113...13,451,715
Ensembl chr 3:13,449,086...13,451,932 		JBrowse link
negative regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dffa DNA fragmentation factor subunit alpha acts_upstream_of_or_within
involved_in		 ISO (PMID:15572351)
MGI:2179456 (PMID:10601318), (PMID:14663139)
(PMID:11371636)		 RGD PMID:10601318 PMID:11371636 PMID:14663139 PMID:15572351 NCBI chr 5:159,540,715...159,553,639
Ensembl chr 5:159,540,715...159,553,633 		JBrowse link
G Dffb DNA fragmentation factor subunit beta involved_in ISO
IEA		 (PMID:11371636)
GO_REF:0000107		 RGD
Ensembl		 PMID:11371636 GO_REF:0000107 NCBI chr 5:164,522,446...164,534,733
Ensembl chr 5:164,522,463...164,534,628 		JBrowse link
G Mir146a microRNA 146a involved_in ISO (PMID:28433754) RGD PMID:28433754 NCBI chr10:27,848,516...27,848,610
Ensembl chr10:27,848,516...27,848,610 		JBrowse link
G Nmnat1 nicotinamide nucleotide adenylyltransferase 1 IMP RGD PMID:27184051 RGD:13781945 NCBI chr 5:159,910,242...159,928,201
Ensembl chr 5:159,910,242...159,928,180 		JBrowse link
G Pam16 presequence translocase associated motor 16 IDA RGD PMID:24069394 RGD:13462066 NCBI chr10:10,942,534...10,950,654
Ensembl chr10:10,943,001...10,950,649 		JBrowse link
negative regulation of DNA catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Rgn regucalcin IDA RGD PMID:2001740 RGD:9590215 NCBI chr  X:1,619,030...1,634,456
Ensembl chr  X:1,619,032...1,634,450 		JBrowse link
positive regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bax BCL2 associated X, apoptosis regulator involved_in ISO (PMID:11350920) RGD PMID:11350920 NCBI chr 1:95,940,001...95,945,407
Ensembl chr 1:95,938,808...95,945,368 		JBrowse link
G Endog endonuclease G IMP RGD PMID:16407272 RGD:9685355 NCBI chr 3:13,449,113...13,451,715
Ensembl chr 3:13,449,086...13,451,932 		JBrowse link
G Gata5 GATA binding protein 5 IMP RGD PMID:25726415 RGD:155260369 NCBI chr 3:167,418,563...167,426,751
Ensembl chr 3:167,418,565...167,426,751 		JBrowse link
G Hsf1 heat shock transcription factor 1 IMP RGD PMID:21192280 RGD:10403035 NCBI chr 7:108,196,040...108,223,011
Ensembl chr 7:108,196,056...108,223,011 		JBrowse link
G Igfbp3 insulin-like growth factor binding protein 3 IMP RGD PMID:15125883 RGD:10402776 NCBI chr14:82,056,347...82,064,083
Ensembl chr14:82,056,347...82,064,083 		JBrowse link
G Il6 interleukin 6 involved_in ISO (PMID:28433754) RGD PMID:28433754 NCBI chr 4:5,214,602...5,219,178
Ensembl chr 4:5,213,394...5,219,178 		JBrowse link
positive regulation of DNA catabolic process term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atm ATM serine/threonine kinase IMP RGD PMID:27895165 RGD:12879393 NCBI chr 8:53,828,741...53,932,773
Ensembl chr 8:53,831,093...53,932,437 		JBrowse link
regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aifm1 apoptosis inducing factor, mitochondria associated 1 acts_upstream_of_or_within ISO MGI:1306796 (PMID:15703386) RGD PMID:15703386 NCBI chr  X:127,650,223...127,689,356
Ensembl chr  X:127,650,226...127,689,256 		JBrowse link
G Apaf1 apoptotic peptidase activating factor 1 acts_upstream_of_or_within ISO MGI:1349414 (PMID:15703386) RGD PMID:15703386 NCBI chr 7:25,494,143...25,579,540
Ensembl chr 7:25,494,609...25,579,540 		JBrowse link
G Cdkn2a cyclin-dependent kinase inhibitor 2A involved_in ISO (PMID:12082630) RGD PMID:12082630 NCBI chr 5:103,984,949...103,992,143
Ensembl chr 5:103,984,949...104,003,149 		JBrowse link
G Cidea cell death-inducing DFFA-like effector a involved_in ISO (MGI:1203887|PMID:9564035) RGD PMID:9564035 MGI:1203887 NCBI chr18:60,894,917...60,920,485
Ensembl chr18:60,894,874...60,920,481 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19692
    metabolic process 11456
      primary metabolic process 10015
        nucleobase-containing compound metabolic process 5524
          nucleic acid metabolic process 4949
            DNA metabolic process 949
              DNA catabolic process 35
                apoptotic DNA fragmentation + 22
                mitochondrial DNA catabolic process 1
                negative regulation of DNA catabolic process + 6
                positive regulation of DNA catabolic process + 7
                regulation of DNA catabolic process + 17
Path 2
Term Annotations click to browse term
  biological_process 19692
    metabolic process 11456
      organic substance metabolic process 10970
        organic cyclic compound metabolic process 6031
          nucleobase-containing compound metabolic process 5524
            nucleic acid metabolic process 4949
              nucleic acid catabolic process 407
                DNA catabolic process 35
                  apoptotic DNA fragmentation + 22
                  mitochondrial DNA catabolic process 1
                  negative regulation of DNA catabolic process + 6
                  positive regulation of DNA catabolic process + 7
                  regulation of DNA catabolic process + 17
paths to the root