Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

ABCB4 (ATP binding cassette subfamily B member 4)

Identity

Other namesABC21
GBD1
ICP3
MDR2
MDR2/3
MDR3
PFIC-3
PGY3
HGNC (Hugo) ABCB4
LocusID (NCBI) 5244
Atlas_Id 51280
Location 7q21.12
Location_base_pair Starts at 87031361 and ends at 87105019 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2015)
ABCC4 13q32.1 / ABCB4 7q21.12

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)ABCB4   45
Cards
Entrez_Gene (NCBI)ABCB4  5244  ATP binding cassette subfamily B member 4
GeneCards (Weizmann)ABCB4
Ensembl hg19 (Hinxton)ENSG00000005471 [Gene_View]  chr7:87031361-87105019 [Contig_View]  ABCB4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000005471 [Gene_View]  chr7:87031361-87105019 [Contig_View]  ABCB4 [Vega]
ICGC DataPortalENSG00000005471
TCGA cBioPortalABCB4
AceView (NCBI)ABCB4
Genatlas (Paris)ABCB4
WikiGenes5244
SOURCE (Princeton)ABCB4
Genomic and cartography
GoldenPath hg19 (UCSC)ABCB4  -     chr7:87031361-87105019 -  7q21.12   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)ABCB4  -     7q21.12   [Description]    (hg38-Dec_2013)
EnsemblABCB4 - 7q21.12 [CytoView hg19]  ABCB4 - 7q21.12 [CytoView hg38]
Mapping of homologs : NCBIABCB4 [Mapview hg19]  ABCB4 [Mapview hg38]
OMIM171060   600803   602347   614972   
Gene and transcription
Genbank (Entrez)BC020618 BC042531 M23234 X06181 Z35284
RefSeq transcript (Entrez)NM_000443 NM_018849 NM_018850
RefSeq genomic (Entrez)NC_000007 NC_018918 NG_007118 NT_007933 NW_004929332
Consensus coding sequences : CCDS (NCBI)ABCB4
Cluster EST : UnigeneHs.654403 [ NCBI ]
CGAP (NCI)Hs.654403
Alternative Splicing : Fast-db (Paris)GSHG0028332
Alternative Splicing GalleryENSG00000005471
Gene ExpressionABCB4 [ NCBI-GEO ]     ABCB4 [ SEEK ]   ABCB4 [ MEM ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)5244
Protein : pattern, domain, 3D structure
UniProt/SwissProtP21439 (Uniprot)
NextProtP21439  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP21439
Splice isoforms : SwissVarP21439 (Swissvar)
Catalytic activity : Enzyme3.6.3.44 [ Enzyme-Expasy ]   3.6.3.44 [ Enzyme-SRS ]   3.6.3.44 [ IntEnz-EBI ]   3.6.3.44 [ PRIAM ]   3.6.3.44 [ BRENDA ]   3.6.3.44 [ KEGG ]   3.6.3.44 [ IUBMB ]
PhosPhoSitePlusP21439
Domaine pattern : Prosite (Expaxy)ABC_TM1F (PS50929)    ABC_TRANSPORTER_1 (PS00211)    ABC_TRANSPORTER_2 (PS50893)   
Domains : Interpro (EBI)AAA+_ATPase    ABC1_TM_dom    ABC_transporter-like    ABC_transporter_CS    MDR3    P-loop_NTPase   
Domain families : Pfam (Sanger)ABC_membrane (PF00664)    ABC_tran (PF00005)   
Domain families : Pfam (NCBI)pfam00664    pfam00005   
Domain families : Smart (EMBL)AAA (SM00382)  
DMDM Disease mutations5244
Blocks (Seattle)ABCB4
Human Protein AtlasENSG00000005471
Peptide AtlasP21439
HPRD01371
IPIIPI00042932   IPI00218731   IPI00001430   IPI00925744   IPI00927655   
Protein Interaction databases
DIP (DOE-UCLA)P21439
IntAct (EBI)P21439
FunCoupENSG00000005471
BioGRIDABCB4
IntegromeDBABCB4
STRING (EMBL)ABCB4
ZODIACABCB4
Ontologies - Pathways
QuickGOP21439
Ontology : AmiGOantigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent  antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent  antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent  positive regulation of antigen processing and presentation of peptide antigen via MHC class I  protein binding  ATP binding  cytoplasm  plasma membrane  plasma membrane  integral component of plasma membrane  lipid metabolic process  transport  drug transmembrane transport  phosphatidylcholine transporter activity  phosphatidylcholine transporter activity  xenobiotic-transporting ATPase activity  membrane  apical plasma membrane  clathrin-coated vesicle  positive regulation of cholesterol transport  positive regulation of cholesterol transport  bile acid secretion  response to drug  ATPase activity, coupled to transmembrane movement of substances  ATPase activity, coupled to transmembrane movement of substances  xenobiotic transport  cellular lipid metabolic process  small molecule metabolic process  membrane raft  phospholipid translocation  intercellular canaliculus  transmembrane transport  lipid homeostasis  positive regulation of phospholipid translocation  extracellular exosome  phosphatidylcholine-translocating ATPase activity  phosphatidylcholine-translocating ATPase activity  response to fenofibrate  cellular response to bile acid  positive regulation of phospholipid transport  positive regulation of phospholipid transport  
Ontology : EGO-EBIantigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent  antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent  antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent  positive regulation of antigen processing and presentation of peptide antigen via MHC class I  protein binding  ATP binding  cytoplasm  plasma membrane  plasma membrane  integral component of plasma membrane  lipid metabolic process  transport  drug transmembrane transport  phosphatidylcholine transporter activity  phosphatidylcholine transporter activity  xenobiotic-transporting ATPase activity  membrane  apical plasma membrane  clathrin-coated vesicle  positive regulation of cholesterol transport  positive regulation of cholesterol transport  bile acid secretion  response to drug  ATPase activity, coupled to transmembrane movement of substances  ATPase activity, coupled to transmembrane movement of substances  xenobiotic transport  cellular lipid metabolic process  small molecule metabolic process  membrane raft  phospholipid translocation  intercellular canaliculus  transmembrane transport  lipid homeostasis  positive regulation of phospholipid translocation  extracellular exosome  phosphatidylcholine-translocating ATPase activity  phosphatidylcholine-translocating ATPase activity  response to fenofibrate  cellular response to bile acid  positive regulation of phospholipid transport  positive regulation of phospholipid transport  
Pathways : BIOCARTANuclear Receptors in Lipid Metabolism and Toxicity [Genes]    Multi-Drug Resistance Factors [Genes]   
Pathways : KEGGABC transporters    Bile secretion   
Protein Interaction DatabaseABCB4
Atlas of Cancer Signalling NetworkABCB4
Wikipedia pathwaysABCB4
Orthology - Evolution
OrthoDB5244
GeneTree (enSembl)ENSG00000005471
Phylogenetic Trees/Animal Genes : TreeFamABCB4
Homologs : HomoloGeneABCB4
Homology/Alignments : Family Browser (UCSC)ABCB4
Gene fusions - Rearrangements
Fusion: TCGAABCC4 13q32.1 ABCB4 7q21.12 HNSC
Polymorphisms : SNP, variants
NCBI Variation ViewerABCB4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ABCB4
dbVarABCB4
ClinVarABCB4
1000_GenomesABCB4 
Exome Variant ServerABCB4
Exome Aggregation Consortium (ExAC)ENSG00000005471
SNP (GeneSNP Utah)ABCB4
SNP : HGBaseABCB4
Genetic variants : HAPMAPABCB4
Genomic Variants (DGV)ABCB4 [DGVbeta]
Mutations
ICGC Data PortalABCB4 
TCGA Data PortalABCB4 
Tumor PortalABCB4
TCGA Copy Number PortalABCB4
Somatic Mutations in Cancer : COSMICABCB4 
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
LOVD (Leiden Open Variation Database)**PUBLIC** CCHMC Molecular Genetics Laboratory Mutation Database
BioMutasearch ABCB4
DgiDB (Drug Gene Interaction Database)ABCB4
DoCM (Curated mutations)ABCB4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ABCB4 (select a term)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)7:87031361-87105019
CONAN: Copy Number AnalysisABCB4 
Mutations and Diseases : HGMDABCB4
OMIM171060    600803    602347    614972   
MedgenABCB4
NextProtP21439 [Medical]
TSGene5244
GENETestsABCB4
Huge Navigator ABCB4 [HugePedia]  ABCB4 [HugeCancerGEM]
snp3D : Map Gene to Disease5244
BioCentury BCIQABCB4
General knowledge
Chemical/Protein Interactions : CTD5244
Chemical/Pharm GKB GenePA268
Clinical trialABCB4
Other databases
Probes
Litterature
PubMed105 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineABCB4
GoPubMedABCB4
iHOPABCB4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Jan 16 18:03:36 CET 2016

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.