Atlas of Genetics and Cytogenetics in Oncology and Haematology


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RXRB (retinoid X receptor beta)

Identity

Alias_namesretinoid X receptor
Alias_symbol (synonym)NR2B2
H-2RIIBP
RCoR-1
Other aliasDAUDI6
HGNC (Hugo) RXRB
LocusID (NCBI) 6257
Atlas_Id 42187
Location 6p21.32  [Link to chromosome band 6p21]
Location_base_pair Starts at 33193585 and ends at 33200696 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
RXRB (6p21.32) / ZFPL1 (11q13.1)ZFPL1 (11q13.1) / RXRB (6p21.32)

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)RXRB   10478
Cards
Entrez_Gene (NCBI)RXRB  6257  retinoid X receptor beta
AliasesDAUDI6; H-2RIIBP; NR2B2; RCoR-1
GeneCards (Weizmann)RXRB
Ensembl hg19 (Hinxton)ENSG00000204231 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204231 [Gene_View]  chr6:33193585-33200696 [Contig_View]  RXRB [Vega]
ICGC DataPortalENSG00000204231
TCGA cBioPortalRXRB
AceView (NCBI)RXRB
Genatlas (Paris)RXRB
WikiGenes6257
SOURCE (Princeton)RXRB
Genetics Home Reference (NIH)RXRB
Genomic and cartography
GoldenPath hg38 (UCSC)RXRB  -     chr6:33193585-33200696 -  6p21.32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)RXRB  -     6p21.32   [Description]    (hg19-Feb_2009)
EnsemblRXRB - 6p21.32 [CytoView hg19]  RXRB - 6p21.32 [CytoView hg38]
Mapping of homologs : NCBIRXRB [Mapview hg19]  RXRB [Mapview hg38]
OMIM180246   
Gene and transcription
Genbank (Entrez)AB209244 AK225842 AK295759 AK300402 AK301096
RefSeq transcript (Entrez)NM_001270401 NM_001291989 NM_021976
RefSeq genomic (Entrez)NC_000006 NC_018917 NG_023374 NT_113891 NT_167245 NT_167246 NT_167247 NT_167248
Consensus coding sequences : CCDS (NCBI)RXRB
Cluster EST : UnigeneHs.388034 [ NCBI ]
CGAP (NCI)Hs.388034
Alternative Splicing GalleryENSG00000204231
Gene ExpressionRXRB [ NCBI-GEO ]   RXRB [ EBI - ARRAY_EXPRESS ]   RXRB [ SEEK ]   RXRB [ MEM ]
Gene Expression Viewer (FireBrowse)RXRB [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6257
GTEX Portal (Tissue expression)RXRB
Protein : pattern, domain, 3D structure
UniProt/SwissProtP28702   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP28702  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP28702
Splice isoforms : SwissVarP28702
PhosPhoSitePlusP28702
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    Retinoid-X_rcpt/HNF4    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)RXRB
DMDM Disease mutations6257
Blocks (Seattle)RXRB
PDB (SRS)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
PDB (PDBSum)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
PDB (IMB)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
PDB (RSDB)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
Structural Biology KnowledgeBase1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
SCOP (Structural Classification of Proteins)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
CATH (Classification of proteins structures)1H9U    1UHL    5HJP    5I4V    5KYA    5KYJ   
SuperfamilyP28702
Human Protein AtlasENSG00000204231
Peptide AtlasP28702
HPRD01578
IPIIPI00426305   IPI00922754   IPI01009053   IPI01020693   IPI01022583   IPI00607575   IPI00789614   IPI00984407   
Protein Interaction databases
DIP (DOE-UCLA)P28702
IntAct (EBI)P28702
FunCoupENSG00000204231
BioGRIDRXRB
STRING (EMBL)RXRB
ZODIACRXRB
Ontologies - Pathways
QuickGOP28702
Ontology : AmiGORNA polymerase II regulatory region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding  transcription factor activity, sequence-specific DNA binding  steroid hormone receptor activity  transcription coactivator activity  RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding  9-cis retinoic acid receptor activity  protein binding  nucleus  nucleoplasm  transcription initiation from RNA polymerase II promoter  zinc ion binding  steroid hormone mediated signaling pathway  positive regulation of transcription from RNA polymerase II promoter  retinoic acid receptor signaling pathway  
Ontology : EGO-EBIRNA polymerase II regulatory region sequence-specific DNA binding  transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding  transcription factor activity, sequence-specific DNA binding  steroid hormone receptor activity  transcription coactivator activity  RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding  9-cis retinoic acid receptor activity  protein binding  nucleus  nucleoplasm  transcription initiation from RNA polymerase II promoter  zinc ion binding  steroid hormone mediated signaling pathway  positive regulation of transcription from RNA polymerase II promoter  retinoic acid receptor signaling pathway  
Pathways : KEGG   
NDEx NetworkRXRB
Atlas of Cancer Signalling NetworkRXRB
Wikipedia pathwaysRXRB
Orthology - Evolution
OrthoDB6257
GeneTree (enSembl)ENSG00000204231
Phylogenetic Trees/Animal Genes : TreeFamRXRB
HOVERGENP28702
HOGENOMP28702
Homologs : HomoloGeneRXRB
Homology/Alignments : Family Browser (UCSC)RXRB
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerRXRB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RXRB
dbVarRXRB
ClinVarRXRB
1000_GenomesRXRB 
Exome Variant ServerRXRB
ExAC (Exome Aggregation Consortium)RXRB (select the gene name)
Genetic variants : HAPMAP6257
Genomic Variants (DGV)RXRB [DGVbeta]
DECIPHERRXRB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisRXRB 
Mutations
ICGC Data PortalRXRB 
TCGA Data PortalRXRB 
Broad Tumor PortalRXRB
OASIS PortalRXRB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICRXRB  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDRXRB
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 RXRB
DgiDB (Drug Gene Interaction Database)RXRB
DoCM (Curated mutations)RXRB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)RXRB (select a term)
intoGenRXRB
Cancer3DRXRB(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180246   
Orphanet
MedgenRXRB
Genetic Testing Registry RXRB
NextProtP28702 [Medical]
TSGene6257
GENETestsRXRB
Target ValidationRXRB
Huge Navigator RXRB [HugePedia]
snp3D : Map Gene to Disease6257
BioCentury BCIQRXRB
ClinGenRXRB
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6257
Chemical/Pharm GKB GenePA34891
Clinical trialRXRB
Miscellaneous
canSAR (ICR)RXRB (select the gene name)
Probes
Litterature
PubMed86 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineRXRB
EVEXRXRB
GoPubMedRXRB
iHOPRXRB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Wed Jun 7 12:54:12 CEST 2017

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