Atlas of Genetics and Cytogenetics in Oncology and Haematology

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APOBEC3B (apolipoprotein B mRNA editing enzyme catalytic subunit 3B)

Identity

Alias_namesapolipoprotein B mRNA editing enzyme
Alias_symbol (synonym)PHRBNL
FLJ21201
Other aliasA3B
APOBEC1L
ARCD3
ARP4
DJ742C19.2
bK150C2.2
HGNC (Hugo) APOBEC3B
LocusID (NCBI) 9582
Atlas_Id 50120
Location 22q13.1  [Link to chromosome band 22q13]
Location_base_pair Starts at 38982399 and ends at 38992779 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)

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

 

External links

Nomenclature
HGNC (Hugo)APOBEC3B   17352
Cards
Entrez_Gene (NCBI)APOBEC3B  9582  apolipoprotein B mRNA editing enzyme catalytic subunit 3B
AliasesA3B; APOBEC1L; ARCD3; ARP4; 
DJ742C19.2; PHRBNL; bK150C2.2
GeneCards (Weizmann)APOBEC3B
Ensembl hg19 (Hinxton)ENSG00000179750 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000179750 [Gene_View]  ENSG00000179750 [Sequence]  chr22:38982399-38992779 [Contig_View]  APOBEC3B [Vega]
ICGC DataPortalENSG00000179750
TCGA cBioPortalAPOBEC3B
AceView (NCBI)APOBEC3B
Genatlas (Paris)APOBEC3B
WikiGenes9582
SOURCE (Princeton)APOBEC3B
Genetics Home Reference (NIH)APOBEC3B
Genomic and cartography
GoldenPath hg38 (UCSC)APOBEC3B  -     chr22:38982399-38992779 +  22q13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)APOBEC3B  -     22q13.1   [Description]    (hg19-Feb_2009)
EnsemblAPOBEC3B - 22q13.1 [CytoView hg19]  APOBEC3B - 22q13.1 [CytoView hg38]
Mapping of homologs : NCBIAPOBEC3B [Mapview hg19]  APOBEC3B [Mapview hg38]
OMIM607110   
Gene and transcription
Genbank (Entrez)AK024854 AU098564 AY743217 BC031803 BC053859
RefSeq transcript (Entrez)NM_001270411 NM_004900
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)APOBEC3B
Cluster EST : UnigeneHs.658626 [ NCBI ]
CGAP (NCI)Hs.658626
Alternative Splicing GalleryENSG00000179750
Gene ExpressionAPOBEC3B [ NCBI-GEO ]   APOBEC3B [ EBI - ARRAY_EXPRESS ]   APOBEC3B [ SEEK ]   APOBEC3B [ MEM ]
Gene Expression Viewer (FireBrowse)APOBEC3B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9582
GTEX Portal (Tissue expression)APOBEC3B
Human Protein AtlasENSG00000179750-APOBEC3B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UH17   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UH17  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UH17
Splice isoforms : SwissVarQ9UH17
Catalytic activity : Enzyme3.5.4.- [ Enzyme-Expasy ]   3.5.4.-3.5.4.- [ IntEnz-EBI ]   3.5.4.- [ BRENDA ]   3.5.4.- [ KEGG ]   
PhosPhoSitePlusQ9UH17
Domaine pattern : Prosite (Expaxy)CYT_DCMP_DEAMINASES_1 (PS00903)    CYT_DCMP_DEAMINASES_2 (PS51747)   
Domains : Interpro (EBI)APOBEC/CMP_deaminase_Zn-bd    APOBEC_N    CMP_dCMP_dom    Cytidine_deaminase-like   
Domain families : Pfam (Sanger)APOBEC_N (PF08210)   
Domain families : Pfam (NCBI)pfam08210   
Conserved Domain (NCBI)APOBEC3B
DMDM Disease mutations9582
Blocks (Seattle)APOBEC3B
PDB (SRS)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
PDB (PDBSum)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
PDB (IMB)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
PDB (RSDB)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
Structural Biology KnowledgeBase2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
SCOP (Structural Classification of Proteins)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
CATH (Classification of proteins structures)2NBQ    5CQD    5CQH    5CQI    5CQK    5SXG    5SXH    5TD5    5TKM   
SuperfamilyQ9UH17
Human Protein Atlas [tissue]ENSG00000179750-APOBEC3B [tissue]
Peptide AtlasQ9UH17
HPRD06169
IPIIPI00005531   IPI00409617   IPI00880117   IPI00743629   
Protein Interaction databases
DIP (DOE-UCLA)Q9UH17
IntAct (EBI)Q9UH17
FunCoupENSG00000179750
BioGRIDAPOBEC3B
STRING (EMBL)APOBEC3B
ZODIACAPOBEC3B
Ontologies - Pathways
QuickGOQ9UH17
Ontology : AmiGORNA binding  RNA binding  cytidine deaminase activity  nucleus  nucleus  cytoplasm  zinc ion binding  negative regulation of transposition  cytidine to uridine editing  innate immune response  deoxycytidine deaminase activity  defense response to virus  DNA demethylation  
Ontology : EGO-EBIRNA binding  RNA binding  cytidine deaminase activity  nucleus  nucleus  cytoplasm  zinc ion binding  negative regulation of transposition  cytidine to uridine editing  innate immune response  deoxycytidine deaminase activity  defense response to virus  DNA demethylation  
NDEx NetworkAPOBEC3B
Atlas of Cancer Signalling NetworkAPOBEC3B
Wikipedia pathwaysAPOBEC3B
Orthology - Evolution
OrthoDB9582
GeneTree (enSembl)ENSG00000179750
Phylogenetic Trees/Animal Genes : TreeFamAPOBEC3B
HOVERGENQ9UH17
HOGENOMQ9UH17
Homologs : HomoloGeneAPOBEC3B
Homology/Alignments : Family Browser (UCSC)APOBEC3B
Gene fusions - Rearrangements
Fusion : QuiverAPOBEC3B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerAPOBEC3B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)APOBEC3B
dbVarAPOBEC3B
ClinVarAPOBEC3B
1000_GenomesAPOBEC3B 
Exome Variant ServerAPOBEC3B
ExAC (Exome Aggregation Consortium)ENSG00000179750
GNOMAD BrowserENSG00000179750
Varsome BrowserAPOBEC3B
Genetic variants : HAPMAP9582
Genomic Variants (DGV)APOBEC3B [DGVbeta]
DECIPHERAPOBEC3B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisAPOBEC3B 
Mutations
ICGC Data PortalAPOBEC3B 
TCGA Data PortalAPOBEC3B 
Broad Tumor PortalAPOBEC3B
OASIS PortalAPOBEC3B [ Somatic mutations - Copy number]
Cancer Gene: CensusAPOBEC3B 
Somatic Mutations in Cancer : COSMICAPOBEC3B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDAPOBEC3B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch APOBEC3B
DgiDB (Drug Gene Interaction Database)APOBEC3B
DoCM (Curated mutations)APOBEC3B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)APOBEC3B (select a term)
intoGenAPOBEC3B
Cancer3DAPOBEC3B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM607110   
Orphanet
DisGeNETAPOBEC3B
MedgenAPOBEC3B
Genetic Testing Registry APOBEC3B
NextProtQ9UH17 [Medical]
TSGene9582
GENETestsAPOBEC3B
Target ValidationAPOBEC3B
Huge Navigator APOBEC3B [HugePedia]
snp3D : Map Gene to Disease9582
BioCentury BCIQAPOBEC3B
ClinGenAPOBEC3B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9582
Chemical/Pharm GKB GenePA24892
Clinical trialAPOBEC3B
Miscellaneous
canSAR (ICR)APOBEC3B (select the gene name)
Probes
Litterature
PubMed121 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineAPOBEC3B
EVEXAPOBEC3B
GoPubMedAPOBEC3B
iHOPAPOBEC3B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Aug 16 10:47:12 CEST 2018
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