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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 endonuclease 1 involved_in IBA
ISO
(MGI:6201960|PMID:21873635) GO_Central
MGI
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr14:50,924,949...50,927,188
Ensembl chr14:50,924,968...50,927,139
JBrowse link
G Apex2 apurinic/apyrimidinic endonuclease 2 involved_in IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr  X:150,426,974...150,588,206
Ensembl chr  X:150,519,519...150,589,868
JBrowse link
G Dna2 DNA replication helicase/nuclease 2 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr10:62,946,983...62,974,188
Ensembl chr10:62,947,026...62,974,185
JBrowse link
G Ercc6 excision repair cross-complementing rodent repair deficiency, complementation group 6 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr14:32,513,291...32,580,990
Ensembl chr14:32,513,521...32,580,990
JBrowse link
G Hmga1 high mobility group AT-hook 1 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr17:27,556,574...27,563,672
Ensembl chr11:120,762,794...120,764,419
Ensembl chr17:120,762,794...120,764,419
JBrowse link
G Hmga1b high mobility group AT-hook 1B involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr11:120,762,794...120,764,392
Ensembl chr11:120,762,794...120,764,419
JBrowse link
G Hmga2 high mobility group AT-hook 2 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr10:120,361,268...120,476,469
Ensembl chr10:120,361,275...120,476,469
JBrowse link
G Hmgb1 high mobility group box 1 involved_in IMP (MGI:3722031|PMID:17803946) UniProt PMID:17803946 MGI:3722031 NCBI chr 5:149,046,702...149,053,057
Ensembl chr 5:149,046,702...149,184,489
JBrowse link
G Huwe1 HECT, UBA and WWE domain containing 1 involved_in IBA
ISO
(MGI:6201960|PMID:21873635) GO_Central
MGI
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr  X:151,800,785...151,935,417
Ensembl chr  X:151,800,807...151,935,417
JBrowse link
G Lig1 ligase I, DNA, ATP-dependent involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 7:13,277,175...13,311,426
Ensembl chr 7:13,277,283...13,311,433
JBrowse link
G Mpg N-methylpurine-DNA glycosylase acts_upstream_of_or_within
involved_in
IMP
IBA
(MGI:3028824|PMID:15177041)
(MGI:2181327|PMID:9371767)
(MGI:6201960|PMID:21873635)
MGI
GO_Central
PMID:9371767 PMID:15177041 PMID:21873635 MGI:2181327 MGI:3028824 MGI:6201960 NCBI chr11:32,226,505...32,232,702
Ensembl chr11:32,226,505...32,232,700
JBrowse link
G Mutyh mutY DNA glycosylase involved_in IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 4:116,807,636...116,819,439
Ensembl chr 4:116,807,723...116,819,440
JBrowse link
G Neil1 nei endonuclease VIII-like 1 (E. coli) involved_in ISO
IBA
(MGI:6201960|PMID:21873635) MGI
GO_Central
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr 9:57,142,788...57,148,688
Ensembl chr 9:57,142,800...57,148,305
JBrowse link
G Neil2 nei like 2 (E. coli) involved_in IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr14:63,182,439...63,194,154
Ensembl chr14:63,182,443...63,193,856
JBrowse link
G Neil3 nei like 3 (E. coli) involved_in IBA
ISO
IDA
(MGI:6201960|PMID:21873635)
(MGI:4440390|PMID:20185759)
GO_Central
MGI
UniProt
PMID:20185759 PMID:21873635 GO_REF:0000096 MGI:4440390 MGI:4834177 MGI:6201960 NCBI chr 8:53,586,867...53,639,065
Ensembl chr 8:53,586,867...53,639,065
JBrowse link
G Nthl1 nth (endonuclease III)-like 1 (E.coli) involved_in IEA UniProt GO_REF:0000002 MGI:2152098 NCBI chr17:24,632,680...24,638,838
Ensembl chr17:24,632,680...24,638,837
JBrowse link
G Ogg1 8-oxoguanine DNA-glycosylase 1 acts_upstream_of_or_within
involved_in
IMP
ISO
IDA
(MGI:1349233|PMID:10570187)
(MGI:894433|PMID:9207108)
MGI
RGD
PMID:9207108 PMID:9801319 PMID:10570187 GO_REF:0000096 MGI:1349233 MGI:4417868 MGI:894433 RGD:729091 NCBI chr 6:113,326,972...113,334,877
Ensembl chr 6:113,326,972...113,335,068
JBrowse link
G Parp1 poly (ADP-ribose) polymerase family, member 1 acts_upstream_of_or_within IMP (MGI:2181257|PMID:11948190) MGI PMID:11948190 MGI:2181257 NCBI chr 1:180,568,891...180,600,999
Ensembl chr 1:180,568,924...180,601,254
JBrowse link
G Parp2 poly (ADP-ribose) polymerase family, member 2 acts_upstream_of_or_within IMP (MGI:2181257|PMID:11948190) MGI PMID:11948190 MGI:2181257 NCBI chr14:50,807,897...50,821,301
Ensembl chr14:50,807,841...50,821,301
JBrowse link
G Polb polymerase (DNA directed), beta involved_in
acts_upstream_of_or_within
ISO
IBA
TAS
(MGI:6201960|PMID:21873635)
(MGI:1355147|PMID:10789676)
MGI
GO_Central
PMID:10789676 PMID:21873635 GO_REF:0000096 MGI:1355147 MGI:4834177 MGI:6201960 NCBI chr 8:22,628,119...22,653,464
Ensembl chr 8:22,628,126...22,653,435
JBrowse link
G Polq polymerase (DNA directed), theta involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr16:37,011,741...37,095,419
Ensembl chr16:37,011,786...37,095,417
JBrowse link
G Rpa1 replication protein A1 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr11:75,300,259...75,348,454
Ensembl chr11:75,298,166...75,348,324
JBrowse link
G Rpa2 replication protein A2 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 4:132,768,360...132,778,746
Ensembl chr 4:132,768,332...132,778,752
JBrowse link
G Rpa3 replication protein A3 involved_in ISO
IBA
(MGI:6201960|PMID:21873635) MGI
GO_Central
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr 6:8,255,936...8,259,141
Ensembl chr 6:8,255,936...8,259,173
JBrowse link
G Sirt6 sirtuin 6 involved_in IMP (MGI:3663736|PMID:16439206) CACAO PMID:16439206 MGI:3663736 NCBI chr10:81,621,787...81,627,792
Ensembl chr10:81,621,785...81,627,797
JBrowse link
G Smug1 single-strand selective monofunctional uracil DNA glycosylase involved_in ISS
ISO
(MGI:2661291|PMID:12718543) HGNC-UCL
MGI
PMID:12718543 GO_REF:0000096 MGI:2661291 MGI:4417868 MGI:4834177 NCBI chr15:103,153,290...103,168,939
Ensembl chr15:103,153,290...103,167,092
JBrowse link
G Tdg thymine DNA glycosylase involved_in IDA
ISO
(MGI:5287540|PMID:21817016) UniProt
MGI
PMID:21817016 GO_REF:0000096 MGI:4834177 MGI:5287540 NCBI chr10:82,629,814...82,650,799
Ensembl chr10:82,629,828...82,650,799
JBrowse link
G Ung uracil DNA glycosylase involved_in ISO MGI
RGD
PMID:12167490 GO_REF:0000096 MGI:4417868 MGI:4834177 RGD:634481 NCBI chr 5:114,130,366...114,139,321
Ensembl chr 5:114,130,386...114,139,323
JBrowse link
G Usp47 ubiquitin specific peptidase 47 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 7:112,023,476...112,111,386
Ensembl chr 7:112,023,504...112,111,661
JBrowse link
G Wrn Werner syndrome RecQ like helicase involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 8:33,234,372...33,385,543
Ensembl chr 8:33,234,384...33,385,527
JBrowse link
G Xpa xeroderma pigmentosum, complementation group A involved_in IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 4:46,175,220...46,196,344
Ensembl chr 4:46,155,347...46,196,311
JBrowse link
G Xrcc1 X-ray repair complementing defective repair in Chinese hamster cells 1 involved_in IBA
ISO
(MGI:6201960|PMID:21873635) GO_Central
MGI
RGD
PMID:17412650 PMID:21873635 GO_REF:0000096 MGI:4417868 MGI:6201960 RGD:2302580 NCBI chr 7:24,546,699...24,573,438
Ensembl chr 7:24,546,289...24,573,440
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 excision repair cross-complementing rodent repair deficiency, complementation group 5 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 1:44,146,948...44,181,260
Ensembl chr 1:44,147,744...44,181,260
JBrowse link
G Nthl1 nth (endonuclease III)-like 1 (E.coli) involved_in ISO
IBA
(MGI:6201960|PMID:21873635) MGI
GO_Central
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr17:24,632,680...24,638,838
Ensembl chr17:24,632,680...24,638,837
JBrowse link
G Ogg1 8-oxoguanine DNA-glycosylase 1 involved_in IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 6:113,326,972...113,334,877
Ensembl chr 6:113,326,972...113,335,068
JBrowse link
G Tdg thymine DNA glycosylase involved_in IBA
ISO
(MGI:6201960|PMID:21873635) GO_Central
MGI
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr10:82,629,814...82,650,799
Ensembl chr10:82,629,828...82,650,799
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
IBA
(MGI:6201960|PMID:21873635) MGI
GO_Central
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr 5:114,130,366...114,139,321
Ensembl chr 5:114,130,386...114,139,323
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 ligase III, DNA, ATP-dependent involved_in ISO
IBA
(MGI:6201960|PMID:21873635) MGI
RGD
GO_Central
PMID:17412650 PMID:21873635 GO_REF:0000096 MGI:4417868 MGI:4834177 MGI:6201960 RGD:2302580 NCBI chr11:82,781,109...82,804,274
Ensembl chr11:82,781,108...82,804,274
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 IDA (MGI:3045901|PMID:15177179) MGI PMID:15177179 MGI:3045901 NCBI chr 2:132,249,286...132,253,180
Ensembl chr 2:132,249,162...132,253,314
JBrowse link
G Polb polymerase (DNA directed), beta acts_upstream_of_or_within
involved_in
TAS
ISO
IMP
(MGI:1334987|PMID:10197627), (MGI:1352950|PMID:10655502)
(MGI:3045901|PMID:15177179)
MGI
RGD
PMID:10197627 PMID:10655502 PMID:15177179 PMID:17412650 GO_REF:0000096 MGI:1334987 MGI:1352950 MGI:3045901 MGI:4417868 RGD:2302580 NCBI chr 8:22,628,119...22,653,464
Ensembl chr 8:22,628,126...22,653,435
JBrowse link
G Pold1 polymerase (DNA directed), delta 1, catalytic subunit involved_in
acts_upstream_of_or_within
IBA
ISO
IMP
(MGI:6201960|PMID:21873635)
(MGI:3045901|PMID:15177179)
GO_Central
MGI
PMID:15177179 PMID:21873635 GO_REF:0000096 MGI:3045901 MGI:4834177 MGI:6201960 NCBI chr 7:44,532,744...44,548,815
Ensembl chr 7:44,532,746...44,548,849
JBrowse link
G Pole polymerase (DNA directed), epsilon involved_in ISO
IBA
(MGI:6201960|PMID:21873635) MGI
GO_Central
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr 5:110,286,319...110,337,468
Ensembl chr 5:110,286,306...110,337,474
JBrowse link
G Polg polymerase (DNA directed), gamma acts_upstream_of_or_within ISO (PMID:15177179) MGI PMID:15177179 NCBI chr 7:79,446,231...79,467,911
Ensembl chr 7:79,446,231...79,466,362
JBrowse link
G Poll polymerase (DNA directed), lambda involved_in
acts_upstream_of_or_within
ISO
ISA
(MGI:3045901|PMID:15177179) MGI PMID:15177179 GO_REF:0000096 MGI:3045901 MGI:4834177 NCBI chr19:45,552,275...45,560,564
Ensembl chr19:45,552,275...45,560,531
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 IBA
ISO
(MGI:6201960|PMID:21873635) GO_Central
MGI
PMID:21873635 GO_REF:0000096 MGI:4834177 MGI:6201960 NCBI chr 7:100,706,628...100,841,646
Ensembl chr 7:100,706,635...100,841,656
JBrowse link
G Rps3 ribosomal protein S3 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr 7:99,477,896...99,483,709
Ensembl chr 7:99,477,896...99,483,738
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 endonuclease 1 involved_in ISO MGI GO_REF:0000096 MGI:4834177 NCBI chr14:50,924,949...50,927,188
Ensembl chr14:50,924,968...50,927,139
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 28627
    metabolic process 11326
      cellular metabolic process 10136
        cellular macromolecule metabolic process 7716
          DNA metabolic process 909
            DNA repair 517
              base-excision repair 41
                base-excision repair, AP site formation + 5
                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 28627
    metabolic process 11326
      cellular metabolic process 10136
        cellular aromatic compound metabolic process 5519
          nucleobase-containing compound metabolic process 5286
            nucleic acid metabolic process 4841
              DNA metabolic process 909
                DNA repair 517
                  base-excision repair 41
                    base-excision repair, AP site formation + 5
                    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