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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 acts_upstream_of_or_within ISO (MGI:3665365|PMID:16964241) RGD PMID:16964241 MGI:3665365 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 PMID:21873635 GO_Central PMID:21873635 RGD:13792537 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
IBA
(PMID:7565692)
PMID:21873635
RGD PMID:7565692 PMID:21873635 RGD:13792537 NCBI chr10:67,717,796...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 (MGI:3052572|PMID:15194694), (MGI:3615734|PMID:15968270)
(PMID:12517771)
RGD PMID:12517771 PMID:15194694 PMID:15968270 PMID:9600082 MGI:3052572 MGI:3615734, 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 chr10:83,946,186...83,975,694
Ensembl chr10:83,945,735...83,976,874
JBrowse link
G Xrcc4 X-ray repair cross complementing 4 acts_upstream_of_or_within ISO (MGI:3052572|PMID:15194694) RGD PMID:15194694 MGI:3052572 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
PMID:21873635
(PMID:24674627)
(PMID:19589734)
RGD PMID:19589734 PMID:24674627 PMID:17412650 PMID:21873635 RGD:2302580, RGD:13792537 NCBI chr10:67,717,796...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 (MGI:1312981|PMID:9823897) RGD PMID:9823897 MGI:1312981 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 acts_upstream_of_or_within
involved_in
ISO MGI:1857732 (MGI:1312981|PMID:9823897)
(PMID:12517771), (PMID:17290226)
RGD PMID:9823897 PMID:12517771 PMID:17290226 MGI:1312981 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 (PMID:19056826) RGD PMID:19056826 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 IBA
ISO
PMID:21873635
(PMID:12517771), (PMID:15385968), (PMID:17290226), (PMID:28453785)
RGD PMID:12517771 PMID:15385968 PMID:17290226 PMID:28453785 PMID:21873635 RGD:13792537 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 chr12:5,973,062...5,978,565
Ensembl chr12:5,901,586...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 ISO (PMID:28002403) RGD PMID:28002403 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 chr12:5,973,062...5,978,565
Ensembl chr12:5,901,586...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 19874
    cellular process 18551
      cellular metabolic process 10294
        cellular macromolecule metabolic process 3689
          DNA metabolic process 1034
            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 19874
    metabolic process 12191
      cellular metabolic process 10294
        cellular nitrogen compound metabolic process 6771
          nucleobase-containing compound metabolic process 5755
            nucleic acid metabolic process 5178
              DNA metabolic process 1034
                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