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ONTOLOGY REPORT - ANNOTATIONS

Term:DNA ligation
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Accession:GO:0006266 term browser browse the term
Definition:The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase.


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DNA ligation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aptx aprataxin involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:16964241)		 Ensembl
RGD		 PMID:16964241 GO_REF:0000107 NCBI chr 5:55,798,896...55,822,963
Ensembl chr 5:55,800,248...55,822,855 		JBrowse link
G Lig1 DNA ligase 1 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 1:74,165,688...74,204,400
Ensembl chr 1:74,165,842...74,204,413 		JBrowse link
G Lig3 DNA ligase 3 involved_in ISO (PMID:7565692) RGD PMID:7565692 NCBI chr10:67,717,808...67,741,141
Ensembl chr10:67,717,812...67,798,414 		JBrowse link
G Lig4 DNA ligase 4 acts_upstream_of_or_within
involved_in		 IDA
ISO		 MGI:1857732 (PMID:15194694), (PMID:15968270)
(PMID:12517771)		 RGD PMID:12517771 PMID:15194694 PMID:15968270 PMID:9600082 RGD:1601271 NCBI chr16:79,518,393...79,526,956
Ensembl chr16:79,518,312...79,527,040 		JBrowse link
G Top2a DNA topoisomerase II alpha involved_in ISO
IEA		 (PMID:15491148)
GO_REF:0000107		 RGD
Ensembl		 PMID:15491148 GO_REF:0000107 NCBI chr10:83,945,731...83,976,874
Ensembl chr10:83,945,735...83,976,874 		JBrowse link
G Xrcc4 X-ray repair cross complementing 4 acts_upstream_of_or_within ISO (PMID:15194694) RGD PMID:15194694 NCBI chr 2:20,948,464...21,197,705
Ensembl chr 2:20,951,200...21,197,808 		JBrowse link
base-excision repair, DNA ligation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Lig3 DNA ligase 3 involved_in IDA
IBA
ISO		 GO_REF:0000033
(PMID:24674627)
(PMID:19589734)		 GO_Central
RGD		 PMID:19589734 PMID:24674627 PMID:17412650 GO_REF:0000033, RGD:2302580 NCBI chr10:67,717,808...67,741,141
Ensembl chr10:67,717,812...67,798,414 		JBrowse link
DNA ligation involved in DNA recombination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Lig4 DNA ligase 4 acts_upstream_of_or_within ISO MGI:1857732 (PMID:9823897) RGD PMID:9823897 NCBI chr16:79,518,393...79,526,956
Ensembl chr16:79,518,312...79,527,040 		JBrowse link
DNA ligation involved in DNA repair term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Lig4 DNA ligase 4 involved_in
acts_upstream_of_or_within		 ISO (PMID:12517771), (PMID:17290226)
MGI:1857732 (PMID:9823897)		 RGD PMID:9823897 PMID:12517771 PMID:17290226 NCBI chr16:79,518,393...79,526,956
Ensembl chr16:79,518,312...79,527,040 		JBrowse link
G Nhej1 nonhomologous end-joining factor 1 involved_in ISO
IEA		 (PMID:19056826)
GO_REF:0000107		 RGD
Ensembl		 PMID:19056826 GO_REF:0000107 NCBI chr 9:76,526,322...76,622,488
Ensembl chr 9:76,526,324...76,622,444 		JBrowse link
G Pnkp polynucleotide kinase 3'-phosphatase involved_in ISO (PMID:15385968) RGD PMID:15385968 NCBI chr 1:95,341,465...95,346,921
Ensembl chr 1:95,341,620...95,346,920 		JBrowse link
G Xrcc4 X-ray repair cross complementing 4 involved_in ISO
IBA		 (PMID:12517771), (PMID:15385968), (PMID:17290226), (PMID:28453785)
GO_REF:0000033		 RGD
GO_Central		 PMID:12517771 PMID:15385968 PMID:17290226 PMID:28453785 GO_REF:0000033 NCBI chr 2:20,948,464...21,197,705
Ensembl chr 2:20,951,200...21,197,808 		JBrowse link
positive regulation of DNA ligase activity term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmgb1 high mobility group box 1 involved_in ISO (PMID:9600082) RGD PMID:9600082 NCBI chr12:5,972,950...5,979,658
Ensembl chr12:5,901,586...5,978,565
Ensembl chr16:5,901,586...5,978,565 		JBrowse link
G Hmgb2 high mobility group box 2 involved_in ISO (PMID:9600082) RGD PMID:9600082 NCBI chr16:32,710,651...32,713,230
Ensembl chr16:32,710,658...32,713,140 		JBrowse link
G Xrcc1 X-ray repair cross complementing 1 involved_in IEA
ISO		 GO_REF:0000107
(PMID:28002403)		 Ensembl
RGD		 PMID:28002403 GO_REF:0000107 NCBI chr 1:80,140,495...80,168,705
Ensembl chr 1:80,141,207...80,168,701 		JBrowse link
positive regulation of DNA ligation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aplf aprataxin and PNKP like factor acts_upstream_of_or_within ISO UniProtKB:Q9Y6F1 (PMID:21211721) RGD PMID:21211721 NCBI chr 4:120,070,471...120,122,656
Ensembl chr 4:120,070,471...120,122,633 		JBrowse link
G Hmgb1 high mobility group box 1 involved_in IDA PMID:10866811 UniProt PMID:10866811 RGD:10449519 NCBI chr12:5,972,950...5,979,658
Ensembl chr12:5,901,586...5,978,565
Ensembl chr16:5,901,586...5,978,565 		JBrowse link
G Parp3 poly (ADP-ribose) polymerase family, member 3 acts_upstream_of_or_within ISO UniProtKB:Q8IW19 (PMID:21211721) RGD PMID:21211721 NCBI chr 8:107,111,010...107,117,073
Ensembl chr 8:107,111,012...107,116,782 		JBrowse link
G Rad51 RAD51 recombinase involved_in ISO (PMID:8929543) RGD PMID:8929543 NCBI chr 3:106,099,753...106,125,038
Ensembl chr 3:106,100,381...106,125,035 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20133
    cellular process 19325
      metabolic process 12307
        macromolecule metabolic process 10161
          nucleic acid metabolic process 5151
            DNA metabolic process 961
              DNA ligation 14
                DNA ligation involved in DNA recombination 1
                DNA ligation involved in DNA repair + 5
                DNA-dependent DNA replication DNA ligation + 0
                negative regulation of DNA ligation 0
                positive regulation of DNA ligation + 6
                regulation of DNA ligation + 6
Path 2
Term Annotations click to browse term
  biological_process 20133
    cellular process 19325
      metabolic process 12307
        primary metabolic process 10934
          nucleobase-containing compound metabolic process 5743
            nucleic acid metabolic process 5151
              DNA metabolic process 961
                DNA ligation 14
                  DNA ligation involved in DNA recombination 1
                  DNA ligation involved in DNA repair + 5
                  DNA-dependent DNA replication DNA ligation + 0
                  negative regulation of DNA ligation 0
                  positive regulation of DNA ligation + 6
                  regulation of DNA ligation + 6
paths to the root