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ONTOLOGY REPORT - ANNOTATIONS


Term:base-excision repair
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Accession:GO:0006284 term browser browse the term
Definition:In base excision repair, an altered base is removed by a DNA glycosylase enzyme, followed by excision of the resulting sugar phosphate. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase.
Synonyms:exact_synonym: BER
 xref: Wikipedia:Base_excision_repair



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base-excision repair term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APEX1 apurinic/apyrimidinic endodeoxyribonuclease 1 involved_in ISO (PMID:8932386) CAFA PMID:8932386 NCBI chr14:1,329,745...1,332,315
Ensembl chr14:19,381,911...19,384,542
JBrowse link
G DNA2 DNA replication helicase/nuclease 2 involved_in ISO (PMID:18995831) UniProt PMID:18995831 NCBI chr10:64,898,024...64,956,541
Ensembl chr10:67,207,261...67,264,257
JBrowse link
G ERCC6 ERCC excision repair 6, chromatin remodeling factor involved_in ISO (PMID:9973627) UniProt PMID:9973627 NCBI chr10:44,703,720...44,784,948 JBrowse link
G HMGA1 high mobility group AT-hook 1 involved_in ISO (PMID:19465398) UniProt PMID:19465398 NCBI chr 6:33,807,171...33,816,603 JBrowse link
G HMGA2 high mobility group AT-hook 2 involved_in ISO (PMID:19465398) UniProt PMID:19465398 NCBI chr12:22,954,946...23,096,623 JBrowse link
G HMGB1 high mobility group box 1 involved_in ISO (MGI:3722031|PMID:17803946) UniProt PMID:17803946 MGI:3722031 NCBI chr13:11,737,942...11,894,923
Ensembl chr13:30,174,899...30,179,527
JBrowse link
G HUWE1 HECT, UBA and WWE domain containing E3 ubiquitin protein ligase 1 involved_in ISO (PMID:19713937) UniProt PMID:19713937 NCBI chr  X:45,746,228...45,897,250
Ensembl chr  X:53,855,404...54,005,366
JBrowse link
G LIG1 DNA ligase 1 involved_in ISO (PMID:19589734) BHF-UCL PMID:19589734 NCBI chr19:45,056,737...45,110,867
Ensembl chr19:53,706,778...53,761,088
JBrowse link
G MPG N-methylpurine DNA glycosylase acts_upstream_of_or_within ISO (MGI:2181327|PMID:9371767)
(MGI:3028824|PMID:15177041)
MGI PMID:9371767 PMID:15177041 MGI:2181327 MGI:3028824 Ensembl chr16:70,655...76,763 JBrowse link
G NEIL1 nei like DNA glycosylase 1 involved_in ISO (PMID:17611195) UniProt PMID:17611195 NCBI chr15:54,263,424...54,271,601
Ensembl chr15:73,858,910...73,867,474
JBrowse link
G NEIL3 nei like DNA glycosylase 3 involved_in ISO (PMID:23755964)
(MGI:4440390|PMID:20185759)
HGNC
UniProt
PMID:20185759 PMID:23755964 MGI:4440390 NCBI chr 4:169,503,942...169,556,654
Ensembl chr 4:181,738,803...181,795,082
JBrowse link
G OGG1 8-oxoguanine DNA glycosylase acts_upstream_of_or_within ISO (MGI:894433|PMID:9207108)
(MGI:1349233|PMID:10570187)
RGD
MGI
PMID:9207108 PMID:9801319 PMID:10570187 MGI:1349233 MGI:894433 RGD:729091 NCBI chr 3:9,702,311...9,742,283
Ensembl chr 3:9,940,955...9,947,335
JBrowse link
G PARP1 poly(ADP-ribose) polymerase 1 acts_upstream_of_or_within ISO (MGI:2181257|PMID:11948190) MGI PMID:11948190 MGI:2181257 NCBI chr 1:201,820,355...201,867,673
Ensembl chr 1:206,812,981...206,860,356
JBrowse link
G PARP2 poly(ADP-ribose) polymerase 2 acts_upstream_of_or_within ISO (MGI:2181257|PMID:11948190) MGI PMID:11948190 MGI:2181257 NCBI chr14:1,215,727...1,230,006
Ensembl chr14:19,269,046...19,282,853
JBrowse link
G POLB DNA polymerase beta involved_in ISO (PMID:16600869)
(PMID:21362556)
UniProt PMID:16600869 PMID:21362556 NCBI chr 8:41,582,370...41,615,950
Ensembl chr 8:39,026,991...39,060,464
JBrowse link
G POLQ DNA polymerase theta involved_in ISO (PMID:19188258) UniProt PMID:19188258 NCBI chr 3:118,535,968...118,648,275
Ensembl chr 3:125,446,829...125,559,283
JBrowse link
G RPA1 replication protein A1 involved_in ISO (PMID:9765279) UniProt PMID:9765279 NCBI chr17:1,813,610...1,886,093
Ensembl chr17:1,705,380...1,775,596
JBrowse link
G RPA2 replication protein A2 involved_in ISO (PMID:9765279) UniProt PMID:9765279 NCBI chr 1:27,151,784...27,175,110
Ensembl chr 1:28,191,731...28,214,666
JBrowse link
G RPA3 replication protein A3 involved_in ISO (PMID:9765279) UniProt PMID:9765279 NCBI chr 7:8,361,623...8,365,098
Ensembl chr 7:7,713,629...7,717,169
JBrowse link
G SIRT6 sirtuin 6 involved_in ISO (MGI:3663736|PMID:16439206) CACAO PMID:16439206 MGI:3663736 NCBI chr19:3,196,092...3,204,602
Ensembl chr19:4,146,057...4,154,126
JBrowse link
G SMUG1 single-strand-selective monofunctional uracil-DNA glycosylase 1 involved_in ISO (PMID:12161446)
PMID:12718543
HGNC-UCL PMID:12161446 PMID:12718543 RGD:634191 NCBI chr12:34,564,624...34,572,063
Ensembl chr12:35,288,412...35,296,670
JBrowse link
G TDG thymine DNA glycosylase involved_in ISO (PMID:21862836), (PMID:22327402)
(MGI:5287540|PMID:21817016)
UniProt PMID:21817016 PMID:21862836 PMID:22327402 MGI:5287540 NCBI chr12:101,543,945...101,567,035
Ensembl chr12:104,938,519...104,961,284
JBrowse link
G UNG uracil DNA glycosylase involved_in ISO (PMID:12161446) RGD
HGNC
PMID:12161446 PMID:12167490 RGD:634481 NCBI chr12:106,674,073...106,687,054
Ensembl chr12:110,067,879...110,080,891
JBrowse link
G USP47 ubiquitin specific peptidase 47 involved_in ISO (PMID:21362556) UniProt PMID:21362556 NCBI chr11:12,009,770...12,127,425
Ensembl chr11:11,703,617...11,821,074
JBrowse link
G WRN WRN RecQ like helicase involved_in ISO (PMID:17611195) UniProt PMID:17611195 NCBI chr 8:30,353,643...30,492,978
Ensembl chr 8:27,541,145...27,679,855
JBrowse link
G XRCC1 X-ray repair cross complementing 1 ISO RGD PMID:17412650 RGD:2302580 NCBI chr19:40,485,052...40,522,188
Ensembl chr19:49,094,014...49,125,520
JBrowse link
base-excision repair, AP site formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ERCC5 ERCC excision repair 5, endonuclease involved_in ISO (PMID:9927729) UniProt PMID:9927729 NCBI chr13:84,005,950...84,036,710
Ensembl chr13:103,096,344...103,174,182
JBrowse link
G NTHL1 nth like DNA glycosylase 1 involved_in ISO (PMID:15358233), (PMID:9927729) UniProt PMID:9927729 PMID:15358233 NCBI chr16:655,433...663,521
Ensembl chr16:2,127,858...2,135,656
JBrowse link
G TDG thymine DNA glycosylase involved_in ISO (PMID:11889051)
(PMID:18512959)
CAFA PMID:11889051 PMID:18512959 NCBI chr12:101,543,945...101,567,035
Ensembl chr12:104,938,519...104,961,284
JBrowse link
base-excision repair, AP site formation via deaminated base removal term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G UNG uracil DNA glycosylase involved_in ISO (PMID:18973764) UniProt PMID:18973764 NCBI chr12:106,674,073...106,687,054
Ensembl chr12:110,067,879...110,080,891
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 ISO (PMID:19589734)
(PMID:24674627)
RGD
BHF-UCL
PMID:17412650 PMID:19589734 PMID:24674627 RGD:2302580 NCBI chr17:21,776,483...21,805,706
Ensembl chr17:22,074,046...22,095,220
JBrowse link
base-excision repair, gap-filling term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G PCNA proliferating cell nuclear antigen acts_upstream_of_or_within ISO (MGI:3045901|PMID:15177179) MGI PMID:15177179 MGI:3045901 NCBI chr20:5,134,930...5,146,603
Ensembl chr20:4,927,731...4,939,440
JBrowse link
G POLB DNA polymerase beta acts_upstream_of_or_within ISO (MGI:3045901|PMID:15177179) RGD
MGI
PMID:15177179 PMID:17412650 MGI:3045901 RGD:2302580 NCBI chr 8:41,582,370...41,615,950
Ensembl chr 8:39,026,991...39,060,464
JBrowse link
G POLD1 DNA polymerase delta 1, catalytic subunit involved_in
acts_upstream_of_or_within
ISO (PMID:10559260), (PMID:10559261)
(MGI:3045901|PMID:15177179)
UniProt
MGI
PMID:10559260 PMID:10559261 PMID:15177179 MGI:3045901 NCBI chr19:47,347,919...47,381,772
Ensembl chr19:56,251,356...56,297,611
JBrowse link
G POLE DNA polymerase epsilon, catalytic subunit involved_in ISO (PMID:10559260) UniProt PMID:10559260 NCBI chr12:129,975,750...130,038,402
Ensembl chr12:134,695,976...134,758,650
JBrowse link
G POLG DNA polymerase gamma, catalytic subunit acts_upstream_of_or_within ISO (PMID:15177179) MGI PMID:15177179 NCBI chr15:68,008,214...68,028,241
Ensembl chr15:87,214,451...87,234,739
JBrowse link
G POLL DNA polymerase lambda involved_in ISO (PMID:19806195) UniProt PMID:19806195 NCBI chr10:98,181,049...98,190,463
Ensembl chr10:101,653,978...101,663,360
JBrowse link
positive regulation of base-excision repair term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G FAM168A family with sequence similarity 168 member A involved_in ISO (PMID:25260657) UniProt PMID:25260657 NCBI chr11:68,477,579...68,674,428
Ensembl chr11:71,698,901...71,766,921
JBrowse link
G RPS3 ribosomal protein S3 involved_in ISO (PMID:18973764) UniProt PMID:18973764 NCBI chr11:70,460,702...70,466,909
Ensembl chr11:73,762,794...73,768,982
JBrowse link
telomere maintenance via base-excision repair term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G APEX1 apurinic/apyrimidinic endodeoxyribonuclease 1 involved_in ISO (PMID:24703901) BHF-UCL PMID:24703901 NCBI chr14:1,329,745...1,332,315
Ensembl chr14:19,381,911...19,384,542
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12786
    metabolic process 8099
      cellular metabolic process 7388
        cellular macromolecule metabolic process 5678
          DNA metabolic process 731
            DNA repair 382
              base-excision repair 36
                base-excision repair, AP site formation + 4
                base-excision repair, DNA ligation 1
                base-excision repair, base-free sugar-phosphate removal 0
                base-excision repair, gap-filling 6
                negative regulation of base-excision repair 0
                positive regulation of base-excision repair 2
                regulation of base-excision repair + 2
                telomere maintenance via base-excision repair 1
Path 2
Term Annotations click to browse term
  biological_process 12786
    metabolic process 8099
      cellular metabolic process 7388
        cellular aromatic compound metabolic process 3999
          nucleobase-containing compound metabolic process 3816
            nucleic acid metabolic process 3499
              DNA metabolic process 731
                DNA repair 382
                  base-excision repair 36
                    base-excision repair, AP site formation + 4
                    base-excision repair, DNA ligation 1
                    base-excision repair, base-free sugar-phosphate removal 0
                    base-excision repair, gap-filling 6
                    negative regulation of base-excision repair 0
                    positive regulation of base-excision repair 2
                    regulation of base-excision repair + 2
                    telomere maintenance via base-excision repair 1
paths to the root