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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 5:56,987,714...57,009,481
Ensembl chr 5:56,987,909...57,008,859
JBrowse link
G Lig1 DNA ligase 1 involved_in IBA
IEA
PMID:21873635
GO_REF:0000108
GOC PMID:21873635 GO_REF:0000108, RGD:13792537 NCBI chr 1:75,356,212...75,394,757
Ensembl chr 1:75,356,220...75,394,758
JBrowse link
G Lig3 DNA ligase 3 involved_in IBA
ISO
PMID:21873635
(PMID:7565692)
RGD PMID:7565692, PMID:21873635 RGD:13792537 NCBI chr10:70,134,734...70,158,051
Ensembl chr10:70,134,729...70,158,055
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 chr16:85,331,771...85,339,496
Ensembl chr16:85,331,866...85,337,769
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 chr10:86,901,467...86,930,947
Ensembl chr10:86,901,007...86,932,154
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 2:18,674,496...18,927,463
Ensembl chr 2:18,677,220...18,927,365
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
ISO
IBA
(PMID:24674627)
(PMID:19589734)
PMID:21873635
RGD PMID:19589734 PMID:24674627, PMID:17412650, PMID:21873635 RGD:2302580, RGD:13792537 NCBI chr10:70,134,734...70,158,051
Ensembl chr10:70,134,729...70,158,055
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 chr16:85,331,771...85,339,496
Ensembl chr16:85,331,866...85,337,769
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
IBA
ISO
PMID:21873635
(PMID:12517771), (PMID:17290226)
MGI:1857732 (MGI:1312981|PMID:9823897)
RGD PMID:9823897 PMID:12517771 PMID:17290226, PMID:21873635 MGI:1312981, RGD:13792537 NCBI chr16:85,331,771...85,339,496
Ensembl chr16:85,331,866...85,337,769
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 9:82,230,230...82,327,923
Ensembl chr 9:82,230,232...82,327,534
JBrowse link
G Pnkp polynucleotide kinase 3'-phosphatase involved_in ISO
IEA
(PMID:15385968)
GO_REF:0000107
RGD
Ensembl
PMID:15385968 GO_REF:0000107 NCBI chr 1:100,853,475...100,859,202
Ensembl chr 1:100,853,902...100,859,084
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 2:18,674,496...18,927,463
Ensembl chr 2:18,677,220...18,927,365
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 chr12:7,082,529...7,090,246
Ensembl chr16:37,500,017...37,502,237
JBrowse link
G Xrcc1 X-ray repair cross complementing 1 involved_in ISO (PMID:28002403) RGD PMID:28002403 NCBI chr 1:81,412,635...81,441,680
Ensembl chr 1:81,413,353...81,441,678
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 4:119,514,822...119,568,764
Ensembl chr 4:119,514,840...119,568,736
JBrowse link
G Hmgb1 high mobility group box 1 involved_in IDA PMID:10866811 UniProt PMID:10866811 RGD:10449519 NCBI chr12:7,082,529...7,090,246
Ensembl chr16:37,500,017...37,502,237
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 8:115,173,440...115,179,543
Ensembl chr 8:115,173,453...115,179,191
JBrowse link
G Rad51 RAD51 recombinase involved_in ISO (PMID:8929543) RGD PMID:8929543 NCBI chr 3:110,918,240...110,942,920
Ensembl chr 3:110,918,243...110,942,917
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19491
    cellular process 18343
      cellular metabolic process 10755
        cellular macromolecule metabolic process 8243
          DNA metabolic process 882
            DNA ligation 13
              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 + 5
              regulation of DNA ligation + 5
Path 2
Term Annotations click to browse term
  biological_process 19491
    metabolic process 11797
      cellular metabolic process 10755
        cellular nitrogen compound metabolic process 6601
          nucleobase-containing compound metabolic process 5420
            nucleic acid metabolic process 4930
              DNA metabolic process 882
                DNA ligation 13
                  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 + 5
                  regulation of DNA ligation + 5
paths to the root