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ONTOLOGY REPORT - ANNOTATIONS

Term:V(D)J recombination
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Accession:GO:0033151 term browser browse the term
Definition:The process in which immune receptor V, D, and J, or V and J gene segments, depending on the specific receptor, are recombined within a single locus utilizing the conserved heptamer and nonomer recombination signal sequences (RSS).
Synonyms:exact_synonym: V(D)J joining;   V-J joining;   V-J recombination
 xref: Wikipedia:V(D)J_recombination


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V(D)J recombination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atm ATM serine/threonine kinase acts_upstream_of_or_within ISO MGI:104779 (PMID:23836881) RGD PMID:23836881 NCBI chr 8:53,828,741...53,932,773
Ensembl chr 8:53,831,093...53,932,437 		JBrowse link
G Dcaf1 DDB1 and CUL4 associated factor 1 involved_in ISO (MGI:5314150|PMID:22157821) RGD PMID:22157821 MGI:5314150 NCBI chr 8:107,466,229...107,540,633
Ensembl chr 8:107,474,312...107,540,627 		JBrowse link
G Dclre1c DNA cross-link repair 1C involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:23836881)		 Ensembl
RGD		 PMID:23836881 GO_REF:0000107 NCBI chr17:74,775,828...74,810,089
Ensembl chr17:74,776,935...74,809,186 		JBrowse link
G Hmgb1 high mobility group box 1 involved_in ISO (PMID:9166431) RGD PMID:9166431 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 Lig1 DNA ligase 1 NOT|involved_in ISO (PMID:9809069) RGD PMID:9809069 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 NOT|involved_in ISO (PMID:9809069) RGD PMID:9809069 NCBI chr10:67,717,808...67,741,141
Ensembl chr10:67,717,812...67,798,414 		JBrowse link
G Lig4 DNA ligase 4 involved_in
acts_upstream_of_or_within		 ISO (PMID:9809069)
MGI:1857732 (PMID:10716994), (PMID:15194694)		 RGD PMID:9809069 PMID:10716994 PMID:15194694 NCBI chr16:79,518,393...79,526,956
Ensembl chr16:79,518,312...79,527,040 		JBrowse link
G Prkdc protein kinase, DNA-activated, catalytic subunit acts_upstream_of_or_within ISO MGI:107202 (PMID:23836881) RGD PMID:23836881 NCBI chr11:85,040,790...85,258,357
Ensembl chr11:85,040,792...85,257,952 		JBrowse link
G Rag1 recombination activating 1 involved_in
acts_upstream_of_or_within		 ISO
IBA		 (PMID:14670978)
MGI:97849 (PMID:2360047)
GO_REF:0000033
(MGI:4441018|PMID:20122409), (MGI:4441148|PMID:10601033), (MGI:50458|PMID:1547488), (MGI:64624|PMID:8284210)		 RGD
GO_Central		 PMID:1547488 PMID:2360047 PMID:8284210 PMID:10601033 PMID:14670978 More... GO_REF:0000033 MGI:4441018 MGI:4441148 MGI:50458 MGI:64624 NCBI chr 3:87,917,061...87,928,158
Ensembl chr 3:87,917,004...87,928,291 		JBrowse link
G Rag2 recombination activating 2 involved_in
acts_upstream_of_or_within		 ISO
IBA		 (MGI:4441252|PMID:18033247), (MGI:50458|PMID:1547488)
MGI:97848 (PMID:2360047)
GO_REF:0000033		 RGD
GO_Central		 PMID:1547488 PMID:2360047 PMID:18033247 GO_REF:0000033 MGI:4441252 MGI:50458 NCBI chr 3:87,902,373...87,910,227
Ensembl chr 3:87,902,238...87,911,066 		JBrowse link
G Xrcc4 X-ray repair cross complementing 4 acts_upstream_of_or_within ISO MGI:1926771 (PMID:10716994) RGD PMID:10716994 NCBI chr 2:20,948,464...21,197,705
Ensembl chr 2:20,951,200...21,197,808 		JBrowse link
G Xrcc6 X-ray repair cross complementing 6 acts_upstream_of_or_within ISO MGI:2179954 (PMID:10716994) RGD PMID:10716994 NCBI chr 7:113,542,992...113,563,762
Ensembl chr 7:113,543,057...113,563,762 		JBrowse link
immunoglobulin heavy chain V-D-J recombination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Polb DNA polymerase beta acts_upstream_of_or_within ISO MGI:5427084 (PMID:24388753) RGD PMID:24388753 NCBI chr16:69,379,438...69,402,710
Ensembl chr16:69,379,400...69,404,812 		JBrowse link
G Yy1 YY1 transcription factor involved_in ISO MGI:3624790 (PMID:23531880) RGD PMID:23531880 NCBI chr 6:127,706,739...127,736,499
Ensembl chr 6:127,707,596...127,732,747 		JBrowse link
immunoglobulin V(D)J recombination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cyren cell cycle regulator of NHEJ involved_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
(MGI:6202149|PMID:30017584), (MGI:6716972|PMID:31795137)		 UniProt
Ensembl
RGD		 PMID:30017584 PMID:31795137 GO_REF:0000024 GO_REF:0000107 MGI:6202149 MGI:6716972 NCBI chr 4:63,547,311...63,553,394
Ensembl chr 4:63,547,335...63,551,602 		JBrowse link
G Foxp1 forkhead box P1 acts_upstream_of_or_within ISO MGI:3711150 (PMID:16819554) RGD PMID:16819554 NCBI chr 4:131,559,599...132,155,092
Ensembl chr 4:131,564,756...132,112,258 		JBrowse link
G Lig4 DNA ligase 4 involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:1857732 (PMID:9823897)		 GO_Central
RGD		 PMID:9823897 GO_REF:0000033 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
ISS		 (PMID:20558749)
GO_REF:0000107
GO_REF:0000024		 RGD
Ensembl
UniProt		 PMID:20558749 GO_REF:0000024 GO_REF:0000107 NCBI chr 9:76,526,322...76,622,488
Ensembl chr 9:76,526,324...76,622,444 		JBrowse link
G Prkdc protein kinase, DNA-activated, catalytic subunit involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:2383951 (PMID:9768755)		 GO_Central
RGD		 PMID:9768755 GO_REF:0000033 NCBI chr11:85,040,790...85,258,357
Ensembl chr11:85,040,792...85,257,952 		JBrowse link
G Tcf3 transcription factor 3 acts_upstream_of_or_within
involved_in		 ISO
IEA
IBA		 (PMID:16428437)
MGI:2178112 (PMID:16428437)
GO_REF:0000118
GO_REF:0000033
GO_REF:0000107		 RGD
TreeGrafter
GO_Central
Ensembl		 PMID:16428437 GO_REF:0000033 GO_REF:0000107 GO_REF:0000118 NCBI chr 7:9,280,571...9,302,315
Ensembl chr 7:9,280,571...9,302,314 		JBrowse link
G Xrcc4 X-ray repair cross complementing 4 involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:1926771 (PMID:9875844)		 GO_Central
RGD		 PMID:9875844 GO_REF:0000033 NCBI chr 2:20,948,464...21,197,705
Ensembl chr 2:20,951,200...21,197,808 		JBrowse link
T cell receptor V(D)J recombination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bcl11b BCL11 transcription factor B acts_upstream_of_or_within ISO MGI:2663971 (PMID:12717433) RGD PMID:12717433 NCBI chr 6:126,834,531...126,927,720
Ensembl chr 6:126,834,531...126,928,224 		JBrowse link
G Lef1 lymphoid enhancer binding factor 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:98507 (PMID:9462507)		 Ensembl
RGD		 PMID:9462507 GO_REF:0000107 NCBI chr 2:219,666,549...219,779,815
Ensembl chr 2:219,666,592...219,779,794 		JBrowse link
G Lig4 DNA ligase 4 acts_upstream_of_or_within ISO MGI:1857732 (PMID:10911993) RGD PMID:10911993 NCBI chr16:79,518,393...79,526,956
Ensembl chr16:79,518,312...79,527,040 		JBrowse link
G Prkdc protein kinase, DNA-activated, catalytic subunit acts_upstream_of_or_within ISO MGI:2383951 (PMID:9768755) RGD PMID:9768755 NCBI chr11:85,040,790...85,258,357
Ensembl chr11:85,040,792...85,257,952 		JBrowse link
G Tcf7 transcription factor 7 acts_upstream_of_or_within ISO MGI:96770 (PMID:9462507) RGD PMID:9462507 NCBI chr10:36,423,443...36,454,350
Ensembl chr10:36,423,445...36,453,535 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20413
    immune system process 3017
      somatic diversification of immune receptors 86
        somatic diversification of immune receptors via germline recombination within a single locus 79
          V(D)J recombination 21
            T cell receptor V(D)J recombination 5
            immunoglobulin V(D)J recombination + 9
Path 2
Term Annotations click to browse term
  biological_process 20413
    metabolic process 11835
      organic substance metabolic process 11328
        organic cyclic compound metabolic process 6260
          nucleobase-containing compound metabolic process 5743
            nucleic acid metabolic process 5144
              DNA metabolic process 991
                DNA recombination 358
                  somatic cell DNA recombination 79
                    somatic diversification of immune receptors via germline recombination within a single locus 79
                      V(D)J recombination 21
                        T cell receptor V(D)J recombination 5
                        immunoglobulin V(D)J recombination + 9
paths to the root