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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 (PMID:1627644) UniProt PMID:1627644 NCBI chr29:20,978,878...20,981,393 JBrowse link
G DFFB DNA fragmentation factor subunit beta involved_in ISO (PMID:19944011) CAFA PMID:19944011 NCBI chr20:127,800,351...127,823,512 JBrowse link
G DNASE1 deoxyribonuclease 1 involved_in IEA InterPro
TreeGrafter
Ensembl		 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 NCBI chr 5:3,310,853...3,352,483
Ensembl chr 5:3,310,824...3,339,870 		JBrowse link
G DNASE1L1 deoxyribonuclease 1 like 1 involved_in IEA InterPro
TreeGrafter		 GO_REF:0000002 GO_REF:0000118
G DNASE1L2 deoxyribonuclease 1 like 2 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:21307874) InterPro
Ensembl
TreeGrafter
MGI		 PMID:21307874 GO_REF:0000002 GO_REF:0000107 GO_REF:0000118 NCBI chr 5:2,130,879...2,133,817
Ensembl chr 5:2,131,854...2,133,524 		JBrowse link
G DNASE1L3 deoxyribonuclease 1L3 involved_in IEA InterPro GO_REF:0000002 NCBI chr22:19,487,767...19,496,019
Ensembl chr22:19,487,596...19,496,129 		JBrowse link
G DNASE2 deoxyribonuclease 2, lysosomal acts_upstream_of_or_within ISO (PMID:15568025), (PMID:18991290) MGI PMID:15568025 PMID:18991290 NCBI chr 6:11,557,034...11,570,117
Ensembl chr 6:11,553,904...11,570,244 		JBrowse link
G FBH1 F-box DNA helicase 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:23361013) Ensembl
MGI		 PMID:23361013 GO_REF:0000107 NCBI chr 9:6,001,071...6,047,512
Ensembl chr 9:6,013,908...6,047,753 		JBrowse link
G ISG20 interferon stimulated exonuclease gene 20 involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr29:7,178,118...7,195,460
Ensembl chr29:7,178,769...7,196,387 		JBrowse link
G LOC103243152 crossover junction endonuclease MUS81 involved_in IEA InterPro
UniProt		 GO_REF:0000002 GO_REF:0000104 NCBI chr16:53,418,865...53,421,128 JBrowse link
G MUS81 MUS81 structure-specific endonuclease subunit acts_upstream_of_or_within
involved_in		 ISO
IEA		 (PMID:23361013) MGI
InterPro
UniProt		 PMID:23361013 GO_REF:0000002 GO_REF:0000104 NCBI chr 1:8,410,571...8,411,793 JBrowse link
G REXO4 REX4 homolog, 3'-5' exonuclease involved_in IEA Ensembl
TreeGrafter		 GO_REF:0000107 GO_REF:0000118 NCBI chr12:4,718,728...4,732,138
Ensembl chr12:4,718,799...4,731,241 		JBrowse link
G SETMAR SET domain and mariner transposase fusion gene involved_in IEA Ensembl GO_REF:0000107 NCBI chr22:40,389,390...40,403,917
Ensembl chr22:40,389,485...40,403,898 		JBrowse link
G TREX1 three prime repair exonuclease 1 acts_upstream_of_or_within ISO (PMID:18724932), (PMID:19923437), (PMID:23993650)
(PMID:20871604)
(PMID:25848017)		 MGI PMID:18724932 PMID:19923437 PMID:20871604 PMID:23993650 PMID:25848017 NCBI chr22:9,869,502...9,871,659 JBrowse link
apoptotic DNA fragmentation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CCK cholecystokinin ISO pancreatic acinar cells RGD PMID:11964411 RGD:625521 NCBI chr22:3,698,192...3,705,443
Ensembl chr22:3,698,173...3,704,956 		JBrowse link
G DFFA DNA fragmentation factor subunit alpha involved_in IEA InterPro GO_REF:0000002 NCBI chr20:121,312,291...121,324,055
Ensembl chr20:121,311,954...121,323,402 		JBrowse link
G DFFB DNA fragmentation factor subunit beta involved_in
acts_upstream_of_or_within		 ISO (PMID:22253444)
(PMID:15572351)		 CAFA
MGI
RGD		 PMID:11425895 PMID:15572351 PMID:22253444 RGD:628524 NCBI chr20:127,800,351...127,823,512 JBrowse link
G DICER1 dicer 1, ribonuclease III involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr24:72,915,550...72,986,658
Ensembl chr24:72,915,499...72,963,006 		JBrowse link
G DNASE1L3 deoxyribonuclease 1L3 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:12050166) Ensembl
MGI
TreeGrafter		 PMID:12050166 GO_REF:0000107 GO_REF:0000118 NCBI chr22:19,487,767...19,496,019
Ensembl chr22:19,487,596...19,496,129 		JBrowse link
G DNASE2 deoxyribonuclease 2, lysosomal involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chr 6:11,557,034...11,570,117
Ensembl chr 6:11,553,904...11,570,244 		JBrowse link
G DNASE2B deoxyribonuclease 2 beta involved_in IEA UniProt
TreeGrafter		 GO_REF:0000104 GO_REF:0000118 NCBI chr20:48,939,012...48,955,940
Ensembl chr20:48,938,973...48,956,045 		JBrowse link
G ENDOG endonuclease G involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:14663139) Ensembl
TreeGrafter
MGI		 PMID:14663139 GO_REF:0000107 GO_REF:0000118 NCBI chr12:9,322,828...9,326,833
Ensembl chr12:9,322,892...9,326,549 		JBrowse link
G EXOG exo/endonuclease G involved_in IEA TreeGrafter GO_REF:0000118 NCBI chr15:892,860...920,371
Ensembl chr15:893,055...919,994 		JBrowse link
G FOXL2 forkhead box L2 involved_in IEA Ensembl GO_REF:0000107 NCBI chr15:51,595,806...51,598,124
Ensembl chr15:51,596,218...51,597,348 		JBrowse link
G VPS54 VPS54 subunit of GARP complex involved_in IEA Ensembl GO_REF:0000107 NCBI chr14:43,000,960...43,127,129
Ensembl chr14:43,008,915...43,125,850 		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 IEA Ensembl GO_REF:0000107 NCBI chr12:9,322,828...9,326,833
Ensembl chr12:9,322,892...9,326,549 		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
IEA		 (PMID:15572351)
(PMID:10601318), (PMID:14663139)		 MGI
Ensembl		 PMID:10601318 PMID:14663139 PMID:15572351 GO_REF:0000107 NCBI chr20:121,312,291...121,324,055
Ensembl chr20:121,311,954...121,323,402 		JBrowse link
G DFFB DNA fragmentation factor subunit beta involved_in ISO (PMID:11371636) ComplexPortal PMID:11371636 NCBI chr20:127,800,351...127,823,512 JBrowse link
G NMNAT1 nicotinamide nucleotide adenylyltransferase 1 ISO RGD PMID:27184051 RGD:13781945 NCBI chr20:121,790,836...121,797,043 JBrowse link
G PAM16 presequence translocase associated motor 16 ISO RGD PMID:24069394 RGD:13462066 NCBI chr 5:4,020,116...4,031,233 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 ISO RGD PMID:2001740 RGD:9590215 NCBI chr  X:44,282,825...44,299,027
Ensembl chr  X:44,285,601...44,299,258 		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) BHF-UCL PMID:11350920 NCBI chr 6:42,186,028...42,193,105 JBrowse link
G BAX BCL2 associated X, apoptosis regulator involved_in IEA Ensembl GO_REF:0000107 Ensembl chr 6:42,186,238...42,194,115 JBrowse link
G ENDOG endonuclease G ISO RGD PMID:16407272 RGD:9685355 NCBI chr12:9,322,828...9,326,833
Ensembl chr12:9,322,892...9,326,549 		JBrowse link
G GATA5 GATA binding protein 5 ISO RGD PMID:25726415 RGD:155260369 NCBI chr 2:1,756,911...1,769,452
Ensembl chr 2:1,757,420...1,768,143 		JBrowse link
G HSF1 heat shock transcription factor 1 ISO RGD PMID:21192280 RGD:10403035 NCBI chr 8:138,503,836...138,529,562
Ensembl chr 8:138,503,831...138,529,165 		JBrowse link
G IGFBP3 insulin like growth factor binding protein 3 ISO RGD PMID:15125883 RGD:10402776 NCBI chr21:12,905,309...12,914,199
Ensembl chr21:12,905,280...12,914,205 		JBrowse link
G IL6 interleukin 6 involved_in IEA Ensembl GO_REF:0000107 NCBI chr21:35,577,513...35,582,385
Ensembl chr21:35,577,939...35,582,237 		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 ISO RGD PMID:27895165 RGD:12879393 NCBI chr 1:99,653,208...99,786,889
Ensembl chr 1:99,653,139...99,791,520 		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
involved_in		 ISO
IEA		 (PMID:15703386) MGI
Ensembl		 PMID:15703386 GO_REF:0000107 NCBI chr  X:105,383,408...105,419,146
Ensembl chr  X:105,382,693...105,419,095 		JBrowse link
G APAF1 apoptotic peptidase activating factor 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 (PMID:15703386) Ensembl
MGI		 PMID:15703386 GO_REF:0000107 NCBI chr11:93,942,137...94,024,728
Ensembl chr11:93,942,103...94,024,457 		JBrowse link
G CIDEA cell death inducing DFFA like effector a involved_in ISO (PMID:9564035) BHF-UCL PMID:9564035 NCBI chr18:70,836,188...70,853,917 JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19806
    cellular process 19328
      metabolic process 13124
        macromolecule metabolic process 11152
          macromolecule catabolic process 1415
            nucleic acid catabolic process 333
              DNA catabolic process 35
                apoptotic DNA fragmentation + 22
                mitochondrial DNA catabolic process 1
                negative regulation of DNA catabolic process + 5
                positive regulation of DNA catabolic process + 8
                regulation of DNA catabolic process + 16
Path 2
Term Annotations click to browse term
  biological_process 19806
    cellular process 19328
      metabolic process 13124
        primary metabolic process 11563
          nucleobase-containing compound metabolic process 7364
            nucleic acid metabolic process 6829
              nucleic acid catabolic process 333
                DNA catabolic process 35
                  apoptotic DNA fragmentation + 22
                  mitochondrial DNA catabolic process 1
                  negative regulation of DNA catabolic process + 5
                  positive regulation of DNA catabolic process + 8
                  regulation of DNA catabolic process + 16
paths to the root