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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 5:58,340,183...58,355,353
Ensembl chr 5:58,339,634...58,354,326
JBrowse link
G DNASE1 deoxyribonuclease 1 IEA
IBA
(PMID:21873635) InterPro
GO_Central
PMID:21873635 GO_REF:0000002 NCBI chr 6:37,596,735...37,599,953
Ensembl chr 6:37,595,911...37,599,827
JBrowse link
G DNASE1L1 deoxyribonuclease 1 like 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:122,101,992...122,109,240
Ensembl chr  X:122,101,992...122,109,165
JBrowse link
G DNASE1L2 deoxyribonuclease 1 like 2 IBA (PMID:21873635) GO_Central PMID:21873635 Ensembl chr 6:38,741,200...38,743,951 JBrowse link
G DNASE1L3 deoxyribonuclease 1 like 3 IEA
IBA
(PMID:21873635) InterPro
GO_Central
PMID:21873635 GO_REF:0000002 NCBI chr20:32,350,138...32,379,240
Ensembl chr20:32,358,110...32,379,245
JBrowse link
G TREX1 three prime repair exonuclease 1 IEA Ensembl GO_REF:0000107 NCBI chr20:40,624,845...40,626,840
Ensembl chr20:40,624,891...40,626,906
JBrowse link
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 IEA InterPro GO_REF:0000002 NCBI chr 2:85,364,819...85,372,473
Ensembl chr 2:85,364,851...85,373,772
JBrowse link
G DFFB DNA fragmentation factor subunit beta IBA
IEA
(PMID:21873635) GO_Central
InterPro
PMID:21873635 GO_REF:0000002 NCBI chr 5:58,340,183...58,355,353
Ensembl chr 5:58,339,634...58,354,326
JBrowse link
G DICER1 dicer 1, ribonuclease III IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 8:63,970,245...64,029,438
Ensembl chr 8:63,972,027...64,019,879
JBrowse link
G DNASE1L3 deoxyribonuclease 1 like 3 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr20:32,350,138...32,379,240
Ensembl chr20:32,358,110...32,379,245
JBrowse link
G DNASE2B deoxyribonuclease 2 beta IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:63,465,477...63,481,893
Ensembl chr 6:63,466,106...63,481,723
JBrowse link
G ENDOG endonuclease G IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 9:54,809,470...54,812,795
Ensembl chr 9:54,809,530...54,813,042
JBrowse link
G EXOG exo/endonuclease G IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr23:8,231,469...8,260,572
Ensembl chr23:8,231,484...8,258,710
JBrowse link
G FOXL2 forkhead box L2 ISO (PMID:16153597) UniProtKB PMID:16153597 NCBI chr23:35,145,856...35,147,185 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 ISS
IBA
IEA
(PMID:29191910)
(PMID:21873635)
UniProtKB
GO_Central
Ensembl
PMID:21873635, PMID:29191910 GO_REF:0000107 NCBI chr 6:37,596,735...37,599,953
Ensembl chr 6:37,595,911...37,599,827
JBrowse link
G DNASE1L1 deoxyribonuclease 1 like 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:122,101,992...122,109,240
Ensembl chr  X:122,101,992...122,109,165
JBrowse link
G DNASE1L2 deoxyribonuclease 1 like 2 IBA (PMID:21873635) GO_Central PMID:21873635 Ensembl chr 6:38,741,200...38,743,951 JBrowse link
G DNASE1L3 deoxyribonuclease 1 like 3 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr20:32,350,138...32,379,240
Ensembl chr20:32,358,110...32,379,245
JBrowse link
G DNASE2 deoxyribonuclease 2, lysosomal IEA Ensembl GO_REF:0000107 NCBI chr20:49,299,236...49,301,815
Ensembl chr20:49,299,406...49,301,814
JBrowse link
G ENDOG endonuclease G IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 9:54,809,470...54,812,795
Ensembl chr 9:54,809,530...54,813,042
JBrowse link
G EXOG exo/endonuclease G IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr23:8,231,469...8,260,572
Ensembl chr23:8,231,484...8,258,710
JBrowse link
G FBH1 F-box DNA helicase 1 IEA Ensembl GO_REF:0000107 NCBI chr 2:30,047,994...30,095,761
Ensembl chr 2:30,048,567...30,095,696
JBrowse link
G MUS81 MUS81 structure-specific endonuclease subunit IEA Ensembl GO_REF:0000107 NCBI chr18:51,396,980...51,404,563
Ensembl chr18:51,396,980...51,402,534
JBrowse link
G REXO4 REX4 homolog, 3'-5' exonuclease IEA Ensembl GO_REF:0000107 NCBI chr 9:49,827,584...49,834,872
Ensembl chr 9:49,828,067...49,836,632
JBrowse link
G SETMAR SET domain without mariner transposase fusion ISO (PMID:24573677)
(PMID:20521842), (PMID:21491884)
UniProtKB PMID:20521842, PMID:21491884, PMID:24573677 NCBI chr20:13,214,241...13,224,020
Ensembl chr20:13,214,241...13,224,020
JBrowse link
G SPO11 SPO11 initiator of meiotic double stranded breaks IEA InterPro GO_REF:0000002 NCBI chr24:42,345,595...42,360,851
Ensembl chr24:42,345,547...42,384,481
JBrowse link
DNA catabolic process, exonucleolytic term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ERI1 exoribonuclease 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr16:35,441,304...35,499,501
Ensembl chr16:35,473,913...35,499,487
JBrowse link
G ERI2 ERI1 exoribonuclease family member 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 6:24,549,760...24,557,568
Ensembl chr 6:24,549,869...24,556,711
JBrowse link
G ERI3 ERI1 exoribonuclease family member 3 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr15:15,948,986...16,076,804
Ensembl chr15:15,948,932...16,076,529
JBrowse link
G ISG20 interferon stimulated exonuclease gene 20 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:51,822,642...51,833,665
Ensembl chr 3:51,822,888...51,833,659
JBrowse link
G REXO4 REX4 homolog, 3'-5' exonuclease IEA Ensembl GO_REF:0000107 NCBI chr 9:49,827,584...49,834,872
Ensembl chr 9:49,828,067...49,836,632
JBrowse link
G TREX2 three prime repair exonuclease 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr  X:121,263,341...121,265,009
Ensembl chr  X:121,258,646...121,264,555
JBrowse link
G XRN2 5'-3' exoribonuclease 2 IEA Ensembl GO_REF:0000107 NCBI chr24:2,042,521...2,128,942
Ensembl chr24:2,042,888...2,128,867
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 IEA Ensembl GO_REF:0000107 NCBI chr 2:85,364,819...85,372,473
Ensembl chr 2:85,364,851...85,373,772
JBrowse link
G NMNAT1 nicotinamide nucleotide adenylyltransferase 1 ISO RGD PMID:27184051 RGD:13781945 NCBI chr 5:63,122,379...63,152,078
Ensembl chr 5:63,122,498...63,151,661
JBrowse link
G PAM16 presequence translocase associated motor 16 ISO RGD PMID:24069394 RGD:13462066 NCBI chr 6:37,040,484...37,047,708 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:40,697,292...40,715,491
Ensembl chr  X:40,698,768...40,715,490
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 IEA Ensembl GO_REF:0000107 NCBI chr 1:107,423,388...107,426,464
Ensembl chr 1:107,422,424...107,426,464
JBrowse link
G ENDOG endonuclease G ISO RGD PMID:16407272 RGD:9685355 NCBI chr 9:54,809,470...54,812,795
Ensembl chr 9:54,809,530...54,813,042
JBrowse link
G HSF1 heat shock transcription factor 1 ISO RGD PMID:21192280 RGD:10403035 NCBI chr13:37,724,741...37,745,259
Ensembl chr13:37,724,759...37,745,252
JBrowse link
G IGFBP3 insulin like growth factor binding protein 3 ISO RGD PMID:15125883 RGD:10402776 NCBI chr16:1,021,855...1,027,604
Ensembl chr16:1,021,972...1,026,392
JBrowse link
G IL6 interleukin 6 ISO (PMID:28433754) ARUK-UCL PMID:28433754 NCBI chr14:36,474,268...36,478,519
Ensembl chr14:36,473,394...36,478,519
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 chr 5:24,180,129...24,297,207
Ensembl chr 5:24,182,135...24,297,207
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:101,275,027...101,307,551
Ensembl chr  X:101,275,017...101,307,367
JBrowse link
G APAF1 apoptotic peptidase activating factor 1 IEA Ensembl GO_REF:0000107 NCBI chr15:38,026,893...38,160,842
Ensembl chr15:38,028,132...38,114,987
JBrowse link
G CIDEA cell death inducing DFFA like effector a IEA Ensembl GO_REF:0000107 NCBI chr 7:77,685,383...77,703,320
Ensembl chr 7:77,684,863...77,702,934
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16190
    metabolic process 10657
      cellular metabolic process 9645
        cellular macromolecule metabolic process 7481
          DNA metabolic process 809
            DNA catabolic process 35
              DNA catabolic process, endonucleolytic + 26
              DNA catabolic process, exonucleolytic 7
              mitochondrial DNA catabolic process 0
              negative regulation of DNA catabolic process + 4
              positive regulation of DNA catabolic process + 6
              regulation of DNA catabolic process + 13
Path 2
Term Annotations click to browse term
  biological_process 16190
    cellular process 15467
      cellular metabolic process 9645
        cellular aromatic compound metabolic process 5107
          nucleobase-containing compound metabolic process 4916
            nucleic acid metabolic process 4467
              DNA metabolic process 809
                DNA catabolic process 35
                  DNA catabolic process, endonucleolytic + 26
                  DNA catabolic process, exonucleolytic 7
                  mitochondrial DNA catabolic process 0
                  negative regulation of DNA catabolic process + 4
                  positive regulation of DNA catabolic process + 6
                  regulation of DNA catabolic process + 13
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.