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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 Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DFFB DNA fragmentation factor subunit beta ISO (PMID:19944011) CAFA PMID:19944011 NCBI chr 1:2,529,733...2,559,490
Ensembl chr 1:3,649,729...3,676,896
JBrowse link
G DNASE1L2 deoxyribonuclease 1 like 2 ISO (MGI:5308183|PMID:21307874) MGI PMID:21307874 MGI:5308183 NCBI chr16:1,093,669...1,096,123
Ensembl chr16:2,336,768...2,338,391
JBrowse link
G TREX1 three prime repair exonuclease 1 ISO (MGI:3834787|PMID:18724932), (MGI:4414715|PMID:19923437), (MGI:5562498|PMID:23993650)
(MGI:4848004|PMID:20871604)
(MGI:5637600|PMID:25848017)
MGI PMID:18724932, PMID:19923437, PMID:20871604, PMID:23993650, PMID:25848017 MGI:3834787, MGI:4414715, MGI:4848004, MGI:5562498, MGI:5637600 NCBI chr 3:48,387,762...48,389,693
Ensembl chr 3:49,470,222...49,471,331
JBrowse link
apoptotic DNA fragmentation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DFFB DNA fragmentation factor subunit beta ISO (PMID:15572351), (PMID:22253444) MGI
RGD
PMID:11425895, PMID:15572351, PMID:22253444 RGD:628524 NCBI chr 1:2,529,733...2,559,490
Ensembl chr 1:3,649,729...3,676,896
JBrowse link
G DNASE1L3 deoxyribonuclease 1 like 3 ISO (PMID:23229555)
(MGI:2385551|PMID:12050166)
UniProtKB
MGI
PMID:12050166, PMID:23229555 MGI:2385551 NCBI chr 3:58,127,491...58,146,177
Ensembl chr 3:59,542,243...59,560,363
JBrowse link
G ENDOG endonuclease G ISO (MGI:3029597|PMID:14663139) MGI PMID:14663139 MGI:3029597 NCBI chr 9:99,941,856...99,945,957 JBrowse link
G FOXL2 forkhead box L2 ISO (PMID:16153597) UniProtKB PMID:16153597 NCBI chr 3:135,968,040...135,980,063 JBrowse link
DNA catabolic process, endonucleolytic term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DNASE1 deoxyribonuclease 1 ISO (MGI:6094744|PMID:29191910) UniProt PMID:29191910 MGI:6094744 NCBI chr16:2,532,281...2,583,408
Ensembl chr16:3,708,189...3,758,615
JBrowse link
G DNASE1L3 deoxyribonuclease 1 like 3 ISO (MGI:6094744|PMID:29191910) UniProt PMID:29191910 MGI:6094744 NCBI chr 3:58,127,491...58,146,177
Ensembl chr 3:59,542,243...59,560,363
JBrowse link
G FBH1 F-box DNA helicase 1 ISO (PMID:23361013) MGI PMID:23361013 NCBI chr10:5,931,389...5,978,844
Ensembl chr10:5,915,713...5,962,778
JBrowse link
G LOC100986203 histone-lysine N-methyltransferase SETMAR ISO (PMID:20521842), (PMID:21491884)
(PMID:24573677)
UniProtKB PMID:20521842, PMID:21491884, PMID:24573677 NCBI chr 3:4,256,539...4,271,593
Ensembl chr 3:4,357,890...4,371,791
JBrowse link
G MUS81 MUS81 structure-specific endonuclease subunit ISO (PMID:23361013) MGI PMID:23361013 NCBI chr11:61,220,699...61,226,747
Ensembl chr11:64,549,840...64,555,875
JBrowse link
G REXO4 REX4 homolog, 3'-5' exonuclease ISO (PMID:21602889) ARUK-UCL PMID:21602889 NCBI chr 9:104,528,838...104,540,813
Ensembl chr 9:133,140,392...133,152,413
JBrowse link
DNA catabolic process, exonucleolytic term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ISG20 interferon stimulated exonuclease gene 20 ISO (PMID:11401564) UniProtKB PMID:11401564 NCBI chr15:67,328,334...67,345,085
Ensembl chr15:86,536,647...86,553,751
JBrowse link
G REXO4 REX4 homolog, 3'-5' exonuclease ISO (PMID:21602889) ARUK-UCL PMID:21602889 NCBI chr 9:104,528,838...104,540,813
Ensembl chr 9:133,140,392...133,152,413
JBrowse link
G XRN2 5'-3' exoribonuclease 2 ISO (PMID:15565158) UniProtKB PMID:15565158 NCBI chr20:21,260,871...21,347,430
Ensembl chr20:21,222,138...21,308,561
JBrowse link
negative regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DFFA DNA fragmentation factor subunit alpha ISO (PMID:15572351)
(MGI:2182584|PMID:10601318), (MGI:3029597|PMID:14663139)
MGI PMID:10601318, PMID:14663139, PMID:15572351 MGI:2182584, MGI:3029597 NCBI chr 1:9,221,096...9,232,813
Ensembl chr 1:10,445,553...10,457,547
JBrowse link
G NMNAT1 nicotinamide nucleotide adenylyltransferase 1 ISO RGD PMID:27184051 RGD:13781945 NCBI chr 1:8,712,798...8,753,027
Ensembl chr 1:9,942,491...9,982,364
JBrowse link
G PAM16 presequence translocase associated motor 16 ISO RGD PMID:24069394 RGD:13462066 NCBI chr16:3,257,769...3,278,322 JBrowse link
negative regulation of DNA catabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G RGN regucalcin ISO RGD PMID:2001740 RGD:9590215 NCBI chr  X:39,513,135...39,530,188
Ensembl chr  X:47,371,226...47,388,881
JBrowse link
positive regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BAX BCL2 associated X, apoptosis regulator ISO (PMID:11350920) BHF-UCL PMID:11350920 NCBI chr19:45,955,926...45,962,870
Ensembl chr19:54,793,594...54,800,468
JBrowse link
G ENDOG endonuclease G ISO RGD PMID:16407272 RGD:9685355 NCBI chr 9:99,941,856...99,945,957 JBrowse link
G HSF1 heat shock transcription factor 1 ISO RGD PMID:21192280 RGD:10403035 NCBI chr 8:141,055,310...141,078,360
Ensembl chr 8:144,062,137...144,067,866
JBrowse link
G IGFBP3 insulin like growth factor binding protein 3 ISO RGD PMID:15125883 RGD:10402776 NCBI chr 7:46,564,234...46,573,145 JBrowse link
G IL6 interleukin 6 ISO (PMID:28433754) ARUK-UCL PMID:28433754 NCBI chr 7:23,415,922...23,420,767 JBrowse link
positive regulation of DNA catabolic process term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ATM ATM serine/threonine kinase ISO RGD PMID:27895165 RGD:12879393 NCBI chr11:103,109,979...103,256,405
Ensembl chr11:106,584,228...106,727,041
JBrowse link
regulation of apoptotic DNA fragmentation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AIFM1 apoptosis inducing factor mitochondria associated 1 ISO (MGI:3577148|PMID:15703386) MGI PMID:15703386 MGI:3577148 NCBI chr  X:119,256,425...119,292,612
Ensembl chr  X:129,550,287...129,586,271
JBrowse link
G APAF1 apoptotic peptidase activating factor 1 ISO (MGI:3577148|PMID:15703386) MGI PMID:15703386 MGI:3577148 NCBI chr12:96,224,515...96,311,246
Ensembl chr12:99,637,622...99,726,939
JBrowse link
G CDKN2A cyclin dependent kinase inhibitor 2A ISO (PMID:12082630) BHF-UCL PMID:12082630 NCBI chr 9:21,803,862...21,831,322 JBrowse link
G CIDEA cell death inducing DFFA like effector a ISO (MGI:1203887|PMID:9564035) BHF-UCL PMID:9564035 MGI:1203887 NCBI chr18:2,051,880...2,075,909 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12566
    metabolic process 7977
      cellular metabolic process 7331
        cellular macromolecule metabolic process 5700
          DNA metabolic process 677
            DNA catabolic process 26
              DNA catabolic process, endonucleolytic + 20
              DNA catabolic process, exonucleolytic 3
              mitochondrial DNA catabolic process 0
              negative regulation of DNA catabolic process + 4
              positive regulation of DNA catabolic process + 6
              regulation of DNA catabolic process + 14
Path 2
Term Annotations click to browse term
  biological_process 12566
    cellular process 11671
      cellular metabolic process 7331
        cellular aromatic compound metabolic process 3867
          nucleobase-containing compound metabolic process 3702
            nucleic acid metabolic process 3398
              DNA metabolic process 677
                DNA catabolic process 26
                  DNA catabolic process, endonucleolytic + 20
                  DNA catabolic process, exonucleolytic 3
                  mitochondrial DNA catabolic process 0
                  negative regulation of DNA catabolic process + 4
                  positive regulation of DNA catabolic process + 6
                  regulation of DNA catabolic process + 14
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.