Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RARB (retinoic acid receptor beta)

Identity

Alias_namesretinoic acid receptor
Alias_symbol (synonym)HAP
NR1B2
RRB2
Other aliasMCOPS12
RARbeta1
HGNC (Hugo) RARB
LocusID (NCBI) 5915
Atlas_Id 42048
Location 3p24.2  [Link to chromosome band 3p24]
Location_base_pair Starts at 25428263 and ends at 25597931 bp from pter ( according to hg38-Dec_2013)

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 Leukemias implicated (Data extracted from papers in the Atlas) [ 2 ]
  del(6q)
Nasal T cell lymphoma


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  Breast: Ductal carcinoma
Head and Neck: Oral leukoplakia


External links

Nomenclature
HGNC (Hugo)RARB   9865
Cards
Entrez_Gene (NCBI)RARB  5915  retinoic acid receptor beta
AliasesHAP; MCOPS12; NR1B2; RARbeta1; 
RRB2
GeneCards (Weizmann)RARB
Ensembl hg19 (Hinxton)ENSG00000077092 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000077092 [Gene_View]  chr3:25428263-25597931 [Contig_View]  RARB [Vega]
ICGC DataPortalENSG00000077092
TCGA cBioPortalRARB
AceView (NCBI)RARB
Genatlas (Paris)RARB
WikiGenes5915
SOURCE (Princeton)RARB
Genetics Home Reference (NIH)RARB
Genomic and cartography
GoldenPath hg38 (UCSC)RARB  -     chr3:25428263-25597931 +  3p24.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RARB  -     3p24.2   [Description]    (hg19-Feb_2009)
EnsemblRARB - 3p24.2 [CytoView hg19]  RARB - 3p24.2 [CytoView hg38]
Mapping of homologs : NCBIRARB [Mapview hg19]  RARB [Mapview hg38]
OMIM180220   615524   
Gene and transcription
Genbank (Entrez)AB307688 AF157483 AK292032 AK299756 AY501390
RefSeq transcript (Entrez)NM_000965 NM_001290216 NM_001290217 NM_001290266 NM_001290276 NM_001290277 NM_001290300 NM_016152
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)RARB
Cluster EST : UnigeneHs.733004 [ NCBI ]
CGAP (NCI)Hs.733004
Alternative Splicing GalleryENSG00000077092
Gene ExpressionRARB [ NCBI-GEO ]   RARB [ EBI - ARRAY_EXPRESS ]   RARB [ SEEK ]   RARB [ MEM ]
Gene Expression Viewer (FireBrowse)RARB [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5915
GTEX Portal (Tissue expression)RARB
Protein : pattern, domain, 3D structure
UniProt/SwissProtP10826   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP10826  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP10826
Splice isoforms : SwissVarP10826
PhosPhoSitePlusP10826
Domaine pattern : Prosite (Expaxy)NUCLEAR_REC_DBD_1 (PS00031)    NUCLEAR_REC_DBD_2 (PS51030)   
Domains : Interpro (EBI)Nucl_hrmn_rcpt_lig-bd    Nuclear_hrmn_rcpt    Retinoic_acid_rcpt    Znf_hrmn_rcpt    Znf_NHR/GATA   
Domain families : Pfam (Sanger)Hormone_recep (PF00104)    zf-C4 (PF00105)   
Domain families : Pfam (NCBI)pfam00104    pfam00105   
Domain families : Smart (EMBL)HOLI (SM00430)  ZnF_C4 (SM00399)  
Conserved Domain (NCBI)RARB
DMDM Disease mutations5915
Blocks (Seattle)RARB
PDB (SRS)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
PDB (PDBSum)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
PDB (IMB)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
PDB (RSDB)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
Structural Biology KnowledgeBase1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
SCOP (Structural Classification of Proteins)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
CATH (Classification of proteins structures)1HRA    1XAP    4DM6    4DM8    4JYG    4JYH    4JYI   
SuperfamilyP10826
Human Protein AtlasENSG00000077092
Peptide AtlasP10826
HPRD07183
IPIIPI00022989   IPI00745428   IPI00219014   IPI00967715   IPI00026250   IPI00651730   
Protein Interaction databases
DIP (DOE-UCLA)P10826
IntAct (EBI)P10826
FunCoupENSG00000077092
BioGRIDRARB
STRING (EMBL)RARB
ZODIACRARB
Ontologies - Pathways
QuickGOP10826
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  ureteric bud development  glandular epithelial cell development  outflow tract septum morphogenesis  retinal pigment epithelium development  growth plate cartilage development  DNA binding  steroid hormone receptor activity  retinoic acid receptor activity  nucleus  nucleoplasm  nucleoplasm  cytoplasm  transcription initiation from RNA polymerase II promoter  signal transduction  drug binding  zinc ion binding  positive regulation of cell proliferation  negative regulation of cell proliferation  striatum development  regulation of myelination  negative regulation of chondrocyte differentiation  protein complex binding  embryonic hindlimb morphogenesis  multicellular organism growth  positive regulation of apoptotic process  negative regulation of apoptotic process  steroid hormone mediated signaling pathway  positive regulation of neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  retinoid X receptor binding  embryonic eye morphogenesis  retinoic acid receptor signaling pathway  embryonic digestive tract development  ventricular cardiac muscle cell differentiation  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  ureteric bud development  glandular epithelial cell development  outflow tract septum morphogenesis  retinal pigment epithelium development  growth plate cartilage development  DNA binding  steroid hormone receptor activity  retinoic acid receptor activity  nucleus  nucleoplasm  nucleoplasm  cytoplasm  transcription initiation from RNA polymerase II promoter  signal transduction  drug binding  zinc ion binding  positive regulation of cell proliferation  negative regulation of cell proliferation  striatum development  regulation of myelination  negative regulation of chondrocyte differentiation  protein complex binding  embryonic hindlimb morphogenesis  multicellular organism growth  positive regulation of apoptotic process  negative regulation of apoptotic process  steroid hormone mediated signaling pathway  positive regulation of neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  retinoid X receptor binding  embryonic eye morphogenesis  retinoic acid receptor signaling pathway  embryonic digestive tract development  ventricular cardiac muscle cell differentiation  
Pathways : BIOCARTANuclear Receptors in Lipid Metabolism and Toxicity [Genes]   
Pathways : KEGGPathways in cancer    Small cell lung cancer    Non-small cell lung cancer   
NDEx NetworkRARB
Atlas of Cancer Signalling NetworkRARB
Wikipedia pathwaysRARB
Orthology - Evolution
OrthoDB5915
GeneTree (enSembl)ENSG00000077092
Phylogenetic Trees/Animal Genes : TreeFamRARB
HOVERGENP10826
HOGENOMP10826
Homologs : HomoloGeneRARB
Homology/Alignments : Family Browser (UCSC)RARB
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRARB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RARB
dbVarRARB
ClinVarRARB
1000_GenomesRARB 
Exome Variant ServerRARB
ExAC (Exome Aggregation Consortium)RARB (select the gene name)
Genetic variants : HAPMAP5915
Genomic Variants (DGV)RARB [DGVbeta]
DECIPHERRARB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRARB 
Mutations
ICGC Data PortalRARB 
TCGA Data PortalRARB 
Broad Tumor PortalRARB
OASIS PortalRARB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRARB  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRARB
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)Pharmacogenomics of Infectious Diseases (PGx_IfD )
BioMutasearch RARB
DgiDB (Drug Gene Interaction Database)RARB
DoCM (Curated mutations)RARB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RARB (select a term)
intoGenRARB
Cancer3DRARB(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180220    615524   
Orphanet2283   
MedgenRARB
Genetic Testing Registry RARB
NextProtP10826 [Medical]
TSGene5915
GENETestsRARB
Target ValidationRARB
Huge Navigator RARB [HugePedia]
snp3D : Map Gene to Disease5915
BioCentury BCIQRARB
ClinGenRARB
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5915
Chemical/Pharm GKB GenePA34226
Clinical trialRARB
Miscellaneous
canSAR (ICR)RARB (select the gene name)
Probes
Litterature
PubMed221 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRARB
EVEXRARB
GoPubMedRARB
iHOPRARB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed Jun 7 12:52:34 CEST 2017

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