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ALKBH3 (alkB homolog 3, alpha-ketoglutaratedependent dioxygenase)

Identity

Alias_namesalkB, alkylation repair homolog 3 (E. coli)
Alias_symbol (synonym)DEPC-1
Other aliasABH3
DEPC1
PCA1
hABH3
HGNC (Hugo) ALKBH3
LocusID (NCBI) 221120
Atlas_Id 53106
Location 11p11.2  [Link to chromosome band 11p11]
Location_base_pair Starts at 43880807 and ends at 43920275 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
ALKBH3 (11p11.2) / ACTN2 (1q43)ALKBH3 (11p11.2) / ANO3 (11p14.2)ALKBH3 (11p11.2) / TCIRG1 (11q13.2)
EXT2 (11p11.2) / ALKBH3 (11p11.2)PHF21A (11p11.2) / ALKBH3 (11p11.2)ALKBH3 11p11.2 / ANO3 11p14.2
EXT2 11p11.2 / ALKBH3 11p11.2PHF21A 11p11.2 / ALKBH3 11p11.2

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 4 ]
  EXT2/ALKBH3 (11p11)
PHF21A/ALKBH3 (11p11)
t(11;11)(p11;p14) ALKBH3/ANO3
t(11;11)(p11;q13) ALKBH3/TCIRG1

External links

Nomenclature
HGNC (Hugo)ALKBH3   30141
Cards
Entrez_Gene (NCBI)ALKBH3  221120  alkB homolog 3, alpha-ketoglutaratedependent dioxygenase
AliasesABH3; DEPC-1; DEPC1; PCA1; 
hABH3
GeneCards (Weizmann)ALKBH3
Ensembl hg19 (Hinxton)ENSG00000166199 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000166199 [Gene_View]  ENSG00000166199 [Sequence]  chr11:43880807-43920275 [Contig_View]  ALKBH3 [Vega]
ICGC DataPortalENSG00000166199
TCGA cBioPortalALKBH3
AceView (NCBI)ALKBH3
Genatlas (Paris)ALKBH3
WikiGenes221120
SOURCE (Princeton)ALKBH3
Genetics Home Reference (NIH)ALKBH3
Genomic and cartography
GoldenPath hg38 (UCSC)ALKBH3  -     chr11:43880807-43920275 +  11p11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)ALKBH3  -     11p11.2   [Description]    (hg19-Feb_2009)
GoldenPathALKBH3 - 11p11.2 [CytoView hg19]  ALKBH3 - 11p11.2 [CytoView hg38]
ImmunoBaseENSG00000166199
Mapping of homologs : NCBIALKBH3 [Mapview hg19]  ALKBH3 [Mapview hg38]
OMIM610603   
Gene and transcription
Genbank (Entrez)AB042029 AK125602 AK315266 BC015155 BC067257
RefSeq transcript (Entrez)NM_139178
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)ALKBH3
Alternative Splicing GalleryENSG00000166199
Gene ExpressionALKBH3 [ NCBI-GEO ]   ALKBH3 [ EBI - ARRAY_EXPRESS ]   ALKBH3 [ SEEK ]   ALKBH3 [ MEM ]
Gene Expression Viewer (FireBrowse)ALKBH3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)221120
GTEX Portal (Tissue expression)ALKBH3
Human Protein AtlasENSG00000166199-ALKBH3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ96Q83   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ96Q83  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ96Q83
Splice isoforms : SwissVarQ96Q83
PhosPhoSitePlusQ96Q83
Domaine pattern : Prosite (Expaxy)FE2OG_OXY (PS51471)   
Domains : Interpro (EBI)AlkB-like    AlkB-like_sf    ALKBH3    Oxoglu/Fe-dep_dioxygenase   
Domain families : Pfam (Sanger)2OG-FeII_Oxy_2 (PF13532)   
Domain families : Pfam (NCBI)pfam13532   
Conserved Domain (NCBI)ALKBH3
DMDM Disease mutations221120
Blocks (Seattle)ALKBH3
PDB (RSDB)2IUW   
PDB Europe2IUW   
PDB (PDBSum)2IUW   
PDB (IMB)2IUW   
Structural Biology KnowledgeBase2IUW   
SCOP (Structural Classification of Proteins)2IUW   
CATH (Classification of proteins structures)2IUW   
SuperfamilyQ96Q83
Human Protein Atlas [tissue]ENSG00000166199-ALKBH3 [tissue]
Peptide AtlasQ96Q83
HPRD16793
IPIIPI00076597   IPI00433171   IPI00978658   IPI00977998   IPI00978103   IPI00977892   IPI00980052   
Protein Interaction databases
DIP (DOE-UCLA)Q96Q83
IntAct (EBI)Q96Q83
FunCoupENSG00000166199
BioGRIDALKBH3
STRING (EMBL)ALKBH3
ZODIACALKBH3
Ontologies - Pathways
QuickGOQ96Q83
Ontology : AmiGOprotein binding  nucleus  nucleoplasm  nucleoplasm  mitochondrion  cytosol  DNA repair  DNA dealkylation involved in DNA repair  DNA dealkylation involved in DNA repair  ferrous iron binding  cell proliferation  L-ascorbic acid binding  oxidative single-stranded DNA demethylation  oxidative single-stranded DNA demethylation  oxidative single-stranded RNA demethylation  DNA-N1-methyladenine dioxygenase activity  DNA-N1-methyladenine dioxygenase activity  cytosine C-5 DNA demethylase activity  RNA N1-methyladenosine dioxygenase activity  
Ontology : EGO-EBIprotein binding  nucleus  nucleoplasm  nucleoplasm  mitochondrion  cytosol  DNA repair  DNA dealkylation involved in DNA repair  DNA dealkylation involved in DNA repair  ferrous iron binding  cell proliferation  L-ascorbic acid binding  oxidative single-stranded DNA demethylation  oxidative single-stranded DNA demethylation  oxidative single-stranded RNA demethylation  DNA-N1-methyladenine dioxygenase activity  DNA-N1-methyladenine dioxygenase activity  cytosine C-5 DNA demethylase activity  RNA N1-methyladenosine dioxygenase activity  
NDEx NetworkALKBH3
Atlas of Cancer Signalling NetworkALKBH3
Wikipedia pathwaysALKBH3
Orthology - Evolution
OrthoDB221120
GeneTree (enSembl)ENSG00000166199
Phylogenetic Trees/Animal Genes : TreeFamALKBH3
HOGENOMQ96Q83
Homologs : HomoloGeneALKBH3
Homology/Alignments : Family Browser (UCSC)ALKBH3
Gene fusions - Rearrangements
Fusion : MitelmanALKBH3/ANO3 [11p11.2/11p14.2]  
Fusion : MitelmanEXT2/ALKBH3 [11p11.2/11p11.2]  [t(11;11)(p11;p11)]  
Fusion : MitelmanPHF21A/ALKBH3 [11p11.2/11p11.2]  [t(11;11)(p11;p11)]  
Fusion PortalALKBH3 11p11.2 ANO3 11p14.2 LUSC
Fusion PortalEXT2 11p11.2 ALKBH3 11p11.2 SKCM
Fusion PortalPHF21A 11p11.2 ALKBH3 11p11.2 LUAD
Fusion : QuiverALKBH3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerALKBH3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ALKBH3
dbVarALKBH3
ClinVarALKBH3
1000_GenomesALKBH3 
Exome Variant ServerALKBH3
ExAC (Exome Aggregation Consortium)ENSG00000166199
GNOMAD BrowserENSG00000166199
Varsome BrowserALKBH3
Genetic variants : HAPMAP221120
Genomic Variants (DGV)ALKBH3 [DGVbeta]
DECIPHERALKBH3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisALKBH3 
Mutations
ICGC Data PortalALKBH3 
TCGA Data PortalALKBH3 
Broad Tumor PortalALKBH3
OASIS PortalALKBH3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICALKBH3  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DALKBH3
Mutations and Diseases : HGMDALKBH3
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch ALKBH3
DgiDB (Drug Gene Interaction Database)ALKBH3
DoCM (Curated mutations)ALKBH3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ALKBH3 (select a term)
intoGenALKBH3
Cancer3DALKBH3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610603   
Orphanet
DisGeNETALKBH3
MedgenALKBH3
Genetic Testing Registry ALKBH3
NextProtQ96Q83 [Medical]
TSGene221120
GENETestsALKBH3
Target ValidationALKBH3
Huge Navigator ALKBH3 [HugePedia]
snp3D : Map Gene to Disease221120
BioCentury BCIQALKBH3
ClinGenALKBH3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD221120
Chemical/Pharm GKB GenePA143485293
Clinical trialALKBH3
Miscellaneous
canSAR (ICR)ALKBH3 (select the gene name)
HarmonizomeALKBH3
DataMed IndexALKBH3
Probes
Litterature
PubMed41 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineALKBH3
EVEXALKBH3
GoPubMedALKBH3
iHOPALKBH3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sun May 10 12:06:31 CEST 2020
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