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Pathways
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PATHWAY ONTOLOGY - ANNOTATIONS

The Pathway Ontology (PW), is currently being developed at the Rat Genome Database. For more information about this vocabulary, please see Petri et al. The rat genome database pathway portal. Database (Oxford). 2011 Apr 8;2011:bar010. Print 2011 or contact us (http://rgd.mcw.edu/contact/index.shtml).
Term:base excision repair pathway
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Accession:PW:0000129 term browser browse the term
Definition:The base excision repair pathway involves the identification and removal of a damaged base followed by its replacement with the correct nucleotide and ligation of the break in the strand.
Synonyms:related_synonym: BER pathway;   Base Excision Repair;   base-excision repair


show annotations for term's descendants           Sort by:
base excision repair pathway term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Apex1 apurinic/apyrimidinic endodeoxyribonuclease 1 IEA
ISS		 KEGG
RGD		 PMID: PMID:16221808 rno:03410, RGD:1358139, RGD:1578408 NCBI chr15:24,144,595...24,146,785
Ensembl chr15:24,144,362...24,146,785 		JBrowse link
G Apex2 apurinic/apyrimidinic endodeoxyribonuclease 2 IEA KEGG rno:03410 NCBI chr  X:19,425,684...19,508,459
Ensembl chr  X:19,487,419...19,508,439 		JBrowse link
G Fen1 flap structure-specific endonuclease 1 IEA KEGG rno:03410 NCBI chr 1:206,845,126...206,849,821
Ensembl chr 1:206,844,884...206,850,003 		JBrowse link
G Hmgb1 high mobility group box 1 IEA KEGG rno:03410 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 Hmgb1-ps33 high-mobility group box 1, pseudogene 33 IEA KEGG rno:03410 NCBI chr19:55,045,869...55,047,145
Ensembl chr19:55,045,869...55,047,145 		JBrowse link
G Hmgb1l5 high mobility group box 1 like 5 IEA KEGG rno:03410 NCBI chr10:39,768,658...39,769,408
Ensembl chr10:39,768,658...39,769,293 		JBrowse link
G Lig1 DNA ligase 1 IEA KEGG
RGD		 PMID: rno:03410, RGD:1358139 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 IEA KEGG rno:03410 NCBI chr10:67,717,808...67,741,141
Ensembl chr10:67,717,812...67,798,414 		JBrowse link
G Mbd4 methyl-CpG binding domain 4 DNA glycosylase IEA KEGG rno:03410 NCBI chr 4:148,893,049...148,904,833
Ensembl chr 4:148,894,280...148,904,982 		JBrowse link
G Mpg N-methylpurine-DNA glycosylase IEA KEGG
RGD		 PMID: rno:03410, RGD:1358139 NCBI chr10:15,396,246...15,402,528
Ensembl chr10:15,395,782...15,402,520 		JBrowse link
G Mutyh mutY DNA glycosylase IEA KEGG rno:03410 NCBI chr 5:130,274,034...130,286,149
Ensembl chr 5:130,274,122...130,286,146 		JBrowse link
G Neil1 nei-like DNA glycosylase 1 IEA KEGG rno:03410 NCBI chr 8:57,550,142...57,556,884
Ensembl chr 8:57,550,147...57,556,258 		JBrowse link
G Neil2 nei-like DNA glycosylase 2 IEA KEGG rno:03410 NCBI chr15:37,444,676...37,454,863
Ensembl chr15:37,445,381...37,454,863 		JBrowse link
G Neil3 nei-like DNA glycosylase 3 IEA KEGG rno:03410 NCBI chr16:38,359,305...38,418,528
Ensembl chr16:38,359,371...38,418,527 		JBrowse link
G Nthl1 nth-like DNA glycosylase 1 IEA KEGG rno:03410 NCBI chr10:13,655,791...13,661,958
Ensembl chr10:13,655,785...13,661,957 		JBrowse link
G Ogg1 8-oxoguanine DNA glycosylase ISS
IEA		 KEGG
RGD		 PMID:16221808 rno:03410, RGD:1578408 NCBI chr 4:146,474,701...146,481,959
Ensembl chr 4:146,474,750...146,484,766 		JBrowse link
G Parp1 poly (ADP-ribose) polymerase 1 IEA KEGG rno:03410 NCBI chr13:92,307,593...92,339,406
Ensembl chr13:92,307,586...92,339,404 		JBrowse link
G Parp2 poly (ADP-ribose) polymerase 2 IEA KEGG rno:03410 NCBI chr15:24,034,069...24,044,340
Ensembl chr15:24,034,106...24,044,338 		JBrowse link
G Parp3 poly (ADP-ribose) polymerase family, member 3 IEA KEGG rno:03410 NCBI chr 8:107,111,010...107,117,073
Ensembl chr 8:107,111,012...107,116,782 		JBrowse link
G Pcna proliferating cell nuclear antigen IEA KEGG rno:03410 NCBI chr 3:119,499,039...119,502,911
Ensembl chr 3:119,498,810...119,502,995 		JBrowse link
G Polb DNA polymerase beta IEA KEGG rno:03410 NCBI chr16:69,379,438...69,402,710
Ensembl chr16:69,379,400...69,404,812 		JBrowse link
G Pold1 DNA polymerase delta 1, catalytic subunit IEA KEGG rno:03410 NCBI chr 1:95,025,462...95,041,559
Ensembl chr 1:95,025,499...95,036,465 		JBrowse link
G Pold2 DNA polymerase delta 2, accessory subunit IEA KEGG rno:03410 NCBI chr14:80,748,971...80,755,188
Ensembl chr14:80,748,974...80,755,160 		JBrowse link
G Pold3 DNA polymerase delta 3, accessory subunit IEA KEGG rno:03410 NCBI chr 1:154,417,893...154,456,687
Ensembl chr 1:154,418,084...154,456,665 		JBrowse link
G Pold4 DNA polymerase delta 4, accessory subunit IEA KEGG rno:03410 NCBI chr 1:201,526,591...201,528,406
Ensembl chr 1:201,526,665...201,528,401 		JBrowse link
G Pole DNA polymerase epsilon, catalytic subunit IEA KEGG rno:03410 NCBI chr12:46,345,420...46,393,984
Ensembl chr12:46,345,420...46,393,939 		JBrowse link
G Pole2 DNA polymerase epsilon 2, accessory subunit IEA KEGG rno:03410 NCBI chr 6:87,674,702...87,712,723
Ensembl chr 6:87,674,702...87,699,305 		JBrowse link
G Pole3 DNA polymerase epsilon 3, accessory subunit IEA KEGG rno:03410 NCBI chr 5:75,973,941...75,977,175
Ensembl chr 5:75,974,717...75,977,231
Ensembl chr 7:75,974,717...75,977,231 		JBrowse link
G Pole4 DNA polymerase epsilon 4, accessory subunit IEA KEGG rno:03410 NCBI chr 4:115,165,285...115,171,097
Ensembl chr 4:115,165,285...115,171,097 		JBrowse link
G Poll DNA polymerase lambda IEA KEGG rno:03410 NCBI chr 1:244,400,202...244,408,762
Ensembl chr 1:244,400,204...244,408,662 		JBrowse link
G Smug1 single-strand-selective monofunctional uracil-DNA glycosylase 1 IEA KEGG rno:03410 NCBI chr 7:134,288,565...134,302,179
Ensembl chr 7:134,287,675...134,297,226 		JBrowse link
G Tdg thymine-DNA glycosylase IEA KEGG rno:03410 NCBI chr 7:21,077,853...21,097,617
Ensembl chr 7:21,077,853...21,097,567 		JBrowse link
G Ung uracil-DNA glycosylase IEA KEGG rno:03410 NCBI chr12:42,485,276...42,494,217
Ensembl chr12:42,485,276...42,494,206 		JBrowse link
G Xrcc1 X-ray repair cross complementing 1 ISS
IEA		 KEGG
RGD		 PMID:16221808 rno:03410, RGD:1578408 NCBI chr 1:80,140,495...80,168,705
Ensembl chr 1:80,141,207...80,168,701 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  pathway 6091
    regulatory pathway 3867
      pathway pertinent to DNA replication and repair, cell cycle, maintenance of genomic integrity, RNA and protein biosynthesis 1738
        DNA repair pathway 384
          single-strand DNA repair pathway 83
            base excision repair pathway 34
Path 2
Term Annotations click to browse term
  pathway 6091
    regulatory pathway 3867
      pathway pertinent to DNA replication and repair, cell cycle, maintenance of genomic integrity, RNA and protein biosynthesis 1738
        DNA damage response pathway 405
          DNA repair pathway 384
            single-strand DNA repair pathway 83
              base excision repair pathway 34
paths to the root