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ONTOLOGY REPORT - ANNOTATIONS


Term:DNA demethylation
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Accession:GO:0080111 term browser browse the term
Definition:The removal of a methyl group from one or more nucleotides within an DNA molecule.


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DNA demethylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aicda activation-induced cytidine deaminase involved_in ISO
IBA
(PMID:21496894)
PMID:21873635
RGD PMID:21496894, PMID:21873635 RGD:13792537 NCBI chr 4:155,359,909...155,371,104
Ensembl chr 4:155,359,921...155,369,671
JBrowse link
G Alkbh1 alkB homolog 1, histone H2A dioxygenase involved_in ISO (PMID:18603530), (PMID:30017583), (PMID:30392959) RGD PMID:18603530 PMID:30017583 PMID:30392959 NCBI chr 6:111,456,096...111,476,829
Ensembl chr 6:111,456,187...111,477,090
JBrowse link
G Alkbh4 alkB homolog 4, lysine demethylase involved_in ISO (MGI:6323482|PMID:30982744) RGD PMID:30982744 MGI:6323482 NCBI chr12:23,568,204...23,574,133
Ensembl chr12:23,568,094...23,574,125
JBrowse link
G Apex1 apurinic/apyrimidinic endodeoxyribonuclease 1 involved_in ISS
ISO
GO_REF:0000024
(PMID:21496894)
UniProt
RGD
PMID:21496894 GO_REF:0000024 NCBI chr15:27,849,943...27,852,083
Ensembl chr15:27,849,979...27,852,082
JBrowse link
G Apobec1 apolipoprotein B mRNA editing enzyme catalytic subunit 1 involved_in IBA
ISO
ISS
PMID:21873635
(MGI:5285126|PMID:21496894)
GO_REF:0000024
RGD
UniProt
PMID:21496894, PMID:21873635 GO_REF:0000024 MGI:5285126, RGD:13792537 NCBI chr 4:155,386,367...155,414,034
Ensembl chr 4:155,386,711...155,401,480
JBrowse link
G Apobec2 apolipoprotein B mRNA editing enzyme catalytic subunit 2 involved_in ISO
IBA
(PMID:21496894)
PMID:21873635
RGD PMID:21496894, PMID:21873635 RGD:13792537 NCBI chr 9:14,529,218...14,542,731
Ensembl chr 9:14,529,218...14,542,731
JBrowse link
G Apobec3 apolipoprotein B mRNA editing enzyme catalytic subunit 3 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 7:121,108,108...121,128,346
Ensembl chr 7:121,109,241...121,128,542
JBrowse link
G Fto FTO, alpha-ketoglutarate dependent dioxygenase involved_in ISO (PMID:18775698)
(MGI:3817348|PMID:18775698), (MGI:4430814|PMID:17991826)
RGD PMID:17991826 PMID:18775698 MGI:3817348 MGI:4430814 NCBI chr19:16,774,549...17,115,098
Ensembl chr19:16,772,744...17,115,113
JBrowse link
G Tdg thymine-DNA glycosylase involved_in ISO (MGI:5141157|PMID:21722948), (MGI:5287540|PMID:21817016), (MGI:5487523|PMID:21278727) RGD PMID:21278727 PMID:21722948 PMID:21817016 MGI:5141157 MGI:5287540 MGI:5487523 NCBI chr 7:27,194,000...27,213,676
Ensembl chr 7:27,193,998...27,214,236
JBrowse link
G Tet1 tet methylcytosine dioxygenase 1 involved_in
acts_upstream_of_or_within
ISO
IBA
(PMID:21496894)
(MGI:4822076|PMID:20639862)
(MGI:3844762|PMID:19372391), (MGI:5285126|PMID:21496894)
PMID:21873635
RGD PMID:19372391 PMID:20639862 PMID:21496894, PMID:21873635 MGI:3844762 MGI:4822076 MGI:5285126, RGD:13792537 NCBI chr20:27,359,122...27,438,039
Ensembl chr20:27,366,213...27,437,427
JBrowse link
G Tet2 tet methylcytosine dioxygenase 2 involved_in
acts_upstream_of_or_within
IBA
ISO
PMID:21873635
(MGI:4822076|PMID:20639862)
(PMID:24315485)
RGD PMID:20639862 PMID:24315485, PMID:21873635 MGI:4822076, RGD:13792537 NCBI chr 2:238,719,389...238,802,975
Ensembl chr 2:238,720,835...238,803,024
JBrowse link
G Tet3 tet methylcytosine dioxygenase 3 involved_in
acts_upstream_of_or_within
IBA
ISO
PMID:21873635
(MGI:5525037|PMID:23690950)
(MGI:4822076|PMID:20639862)
(MGI:5289702|PMID:21892189), (MGI:5432962|PMID:22722204), (MGI:5465527|PMID:21407207)
RGD PMID:20639862 PMID:21407207 PMID:21892189 PMID:22722204 PMID:23690950, PMID:21873635 MGI:4822076 MGI:5289702 MGI:5432962 MGI:5465527 MGI:5525037, RGD:13792537 NCBI chr 4:115,060,702...115,160,800
Ensembl chr 4:115,066,309...115,157,263
JBrowse link
negative regulation of DNA demethylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07015759.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr14:74,094,670...74,095,146 JBrowse link
G AABR07017902.2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr15:32,412,245...32,412,709 JBrowse link
G AABR07026842.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr17:2,920,610...2,921,083 JBrowse link
G AABR07058017.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr 7:98,734,716...98,735,192 JBrowse link
G AABR07061871.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 Ensembl chr 4:150,199,627...150,200,088 JBrowse link
G Dppa3 developmental pluripotency-associated 3 involved_in ISS
ISO
IBA
GO_REF:0000024
(MGI:5432962|PMID:22722204), (MGI:5447615|PMID:17143267), (MGI:5465527|PMID:21407207)
PMID:21873635
UniProt
RGD
PMID:17143267 PMID:21407207 PMID:22722204, PMID:21873635 GO_REF:0000024 MGI:5432962 MGI:5447615 MGI:5465527, RGD:13792537 NCBI chr 4:155,437,675...155,441,059
Ensembl chr 3:111,298,713...111,299,189
Ensembl chr 4:111,298,713...111,299,189
JBrowse link
G Dppa3l1 developmental pluripotency associated 3-like 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 8:60,683,180...60,683,658
Ensembl chr 8:60,683,183...60,683,632
JBrowse link
G Gata3 GATA binding protein 3 acts_upstream_of_or_within ISO (MGI:3046385|PMID:15087456) RGD PMID:15087456 MGI:3046385 NCBI chr17:72,419,752...72,452,043
Ensembl chr17:72,429,618...72,450,681
JBrowse link
G LOC679766 similar to developmental pluripotency-associated 3 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr14:74,094,652...74,095,296 JBrowse link
G Trim28 tripartite motif-containing 28 acts_upstream_of_or_within ISO MGI:1928907 (MGI:5319411|PMID:22495301) RGD PMID:22495301 MGI:5319411 NCBI chr 1:65,544,369...65,551,043
Ensembl chr 1:65,544,373...65,551,043
JBrowse link
oxidative DNA demethylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Alkbh2 alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase involved_in ISO
IBA
(PMID:18432238)
PMID:21873635
RGD PMID:18432238, PMID:21873635 RGD:13792537 NCBI chr12:48,257,575...48,262,244
Ensembl chr12:48,257,609...48,262,243
JBrowse link
G Alkbh4 alkB homolog 4, lysine demethylase involved_in IEA GO_REF:0000108 GOC GO_REF:0000108 NCBI chr12:23,568,204...23,574,133
Ensembl chr12:23,568,094...23,574,125
JBrowse link
oxidative single-stranded DNA demethylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Alkbh1 alkB homolog 1, histone H2A dioxygenase involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:111,456,096...111,476,829
Ensembl chr 6:111,456,187...111,477,090
JBrowse link
G Alkbh3 alkB homolog 3, alpha-ketoglutarate-dependent dioxygenase involved_in ISO
ISS
(PMID:16858410), (PMID:22055184)
GO_REF:0000024
RGD
UniProt
PMID:16858410 PMID:22055184 GO_REF:0000024 NCBI chr 3:82,874,242...82,907,467
Ensembl chr 3:82,874,248...82,906,581
JBrowse link
G Fto FTO, alpha-ketoglutarate dependent dioxygenase involved_in IBA
IEA
ISO
ISS
PMID:21873635
GO_REF:0000107
(MGI:3817348|PMID:18775698)
(PMID:18775698), (PMID:20376003)
GO_REF:0000024
Ensembl
RGD
UniProt
PMID:18775698 PMID:20376003, PMID:21873635 GO_REF:0000024 GO_REF:0000107 MGI:3817348, RGD:13792537 NCBI chr19:16,774,549...17,115,098
Ensembl chr19:16,772,744...17,115,113
JBrowse link
positive regulation of DNA demethylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Otud4 OTU deubiquitinase 4 involved_in ISO (PMID:25944111) RGD PMID:25944111 NCBI chr19:31,895,753...31,942,509
Ensembl chr19:31,899,087...31,942,180
JBrowse link
G Stpg4 sperm-tail PG-rich repeat containing 4 involved_in IBA
ISO
PMID:21873635
(MGI:5762940|PMID:23560077)
RGD PMID:23560077, PMID:21873635 MGI:5762940, RGD:13792537 NCBI chr 6:11,014,596...11,063,509
Ensembl chr 6:11,022,034...11,063,092
JBrowse link
G Tox thymocyte selection-associated high mobility group box involved_in ISO (MGI:3045816|PMID:15078895) RGD PMID:15078895 MGI:3045816 NCBI chr 5:19,892,698...20,189,721
Ensembl chr 5:19,892,698...20,189,721
JBrowse link
G Usp7 ubiquitin specific peptidase 7 involved_in ISS
IEA
ISO
GO_REF:0000024
GO_REF:0000107
(PMID:25944111)
UniProt
Ensembl
RGD
PMID:25944111 GO_REF:0000024 GO_REF:0000107 NCBI chr10:6,930,462...7,019,910
Ensembl chr10:6,975,244...7,018,930
JBrowse link
G Usp9x ubiquitin specific peptidase 9, X-linked involved_in ISO (PMID:25944111) RGD PMID:25944111 NCBI chr  X:10,510,033...10,660,555
Ensembl chr  X:10,510,033...10,630,297
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19491
    metabolic process 11797
      demethylation 74
        DNA demethylation 29
          hydrolytic DNA demethylation 0
          negative regulation of DNA demethylation 10
          oxidative DNA demethylation + 5
          positive regulation of DNA demethylation 5
          regulation of DNA demethylation + 15
Path 2
Term Annotations click to browse term
  biological_process 19491
    metabolic process 11797
      organic substance metabolic process 11337
        organic cyclic compound metabolic process 5870
          nucleobase-containing compound metabolic process 5420
            nucleic acid metabolic process 4930
              DNA metabolic process 882
                DNA modification 107
                  DNA methylation or demethylation 94
                    DNA demethylation 29
                      hydrolytic DNA demethylation 0
                      negative regulation of DNA demethylation 10
                      oxidative DNA demethylation + 5
                      positive regulation of DNA demethylation 5
                      regulation of DNA demethylation + 15
paths to the root