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RARB Gene

protein-coding   GIFtS: 71
GCID: GC03P025194

Retinoic Acid Receptor, Beta

  See RARB-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Retinoic Acid Receptor, Beta1 2     HBV-Activated Protein2 3
HAP2 3 5     MCOPS122 5
Nuclear Receptor Subfamily 1 Group B Member 22 3     RRB22
NR1B22 3     Hepatitis B Virus Activated Protein2
RAR-beta2 3     Retinoic Acid Receptor Beta2
RAR-epsilon2 3     Retinoic Acid Receptor, Beta Polypeptide2

External Ids:    HGNC: 98651   Entrez Gene: 59152   Ensembl: ENSG000000770927   OMIM: 1802205   UniProtKB: P108263   

Export aliases for RARB gene to outside databases

Previous GC identifers: GC03P025167 GC03P025066 GC03P025191 GC03P025192 GC03P025444


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for RARB Gene:
This gene encodes retinoic acid receptor beta, a member of the thyroid-steroid hormone receptor superfamily of
nuclear transcriptional regulators. This receptor localizes to the cytoplasm and to subnuclear compartments. It
binds retinoic acid, the biologically active form of vitamin A which mediates cellular signalling in embryonic
morphogenesis, cell growth and differentiation. It is thought that this protein limits growth of many cell types
by regulating gene expression. The gene was first identified in a hepatocellular carcinoma where it flanks a
hepatitis B virus integration site. Alternate promoter usage and differential splicing result in multiple
transcript variants. (provided by RefSeq, Mar 2014)

GeneCards Summary for RARB Gene:
RARB (retinoic acid receptor, beta) is a protein-coding gene. Diseases associated with RARB include hepatitis b, and microphthalmia, syndromic 12. GO annotations related to this gene include sequence-specific DNA binding and retinoic acid receptor activity. An important paralog of this gene is VDR.

UniProtKB/Swiss-Prot: RARB_HUMAN, P10826
Function: Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response
elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various
biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of
tandem 5'-AGGTCA-3' sites known as DR1-DR5. In the absence or presence of hormone ligand, acts mainly as an
activator of gene expression due to weak binding to corepressors. In concert with RARG, required for skeletal
growth, matrix homeostasis and growth plate function

summary for RARB Gene:
Retinoic acid receptors (RARs) are nuclear hormone receptors of the NRB1 class, which function as
heterodimers with retinoid X receptors (RXRs). There are three distinct RAR subtypes; RARalpha, RARbeta and
RARgamma. RARalpha is present in most tissue types, whereas RARbeta and RARgamma expression is more
selective. RXR-RAR heterodimers act as ligand-dependent transcriptional regulators by binding to the
specific retinoic acid response element (RARE) found in the promoter regions of target genes. In the absence
of an RAR agonist, RXR-RAR recruits co-repressor proteins such as NCoR and associated factors such as
histone deacetylase to maintain a condensed chromatin structure. RAR agonist binding stimulates co-repressor
release and co-activator complexes, such as histone acetyltransferase, are recruited to activate
transcription. RARs transduce retinoid signals in vivo, which mediates proper embryogenesis, differentiation
and growth arrest. Specifically, RXRalpha-RARgamma heterodimers are necessary for growth arrest and viseral
and primitive endodermal differentiation, whereas RXRalpha-RARalpha is required for cAMP-dependent parietal
endodermal differentiation. In vitro it has been difficult to elucidate the roles of individual subtypes as
functional RAR knockouts generate artificial redundancies that are thought not to exist under normal
conditions.

Gene Wiki entry for RARB (Retinoic acid receptor beta) Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000003.11  NC_018914.2  NT_022517.19  
Regulatory elements:
   Regulatory transcription factor binding sites in the RARB gene promoter:
         C/EBPbeta   CBF-B   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): RARB promoter sequence
   Search Chromatin IP Primers for RARB

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RARB


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3p24.2   Ensembl cytogenetic band:  3p24.2   HGNC cytogenetic band: 3p24

RARB Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RARB gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P025194:  view genomic region     (about GC identifiers)

Start:
25,215,823 bp from pter      End:
25,639,423 bp from pter
Size:
423,601 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: RARB_HUMAN, P10826 (See protein sequence)
Recommended Name: Retinoic acid receptor beta  
Size: 455 amino acids; 50489 Da
Subunit: Homodimer (By similarity). Heterodimer; with a RXR molecule. Binds DNA preferentially as a RAR/RXR
heterodimer (By similarity). Interacts weakly with NCOR2
Sequence caution: Sequence=CAA27637.1; Type=Erroneous gene model prediction;
4 PDB 3D structures from and Proteopedia for RARB:
1HRA (3D)        1XAP (3D)        4DM6 (3D)        4DM8 (3D)    
Secondary accessions: P12891 Q00989 Q15298 Q9UN48
Alternative splicing: 4 isoforms:  P10826-1   P10826-2   P10826-4   P10826-3   

Explore the universe of human proteins at neXtProt for RARB: NX_P10826

Explore proteomics data for RARB at MOPED


See RARB Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (8 alternative transcripts): 
NP_000956.2  NP_001277145.1  NP_001277146.1  NP_001277195.1  NP_001277205.1  NP_001277206.1  NP_001277229.1  NP_057236.1  

ENSEMBL proteins: 
 ENSP00000373282   ENSP00000398840   ENSP00000332296   ENSP00000391391   ENSP00000385865  
Reactome Protein details: P10826

RARB Human Recombinant Protein Products:

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OriGene Protein Over-expression Lysate for RARB
OriGene Custom MassSpec
OriGene Custom Protein Services for RARB
GenScript Custom Purified and Recombinant Proteins Services for RARB
Novus Biologicals RARB Proteins
Novus Biologicals RARB Lysates
Browse Sino Biological Recombinant Proteins
Browse Sino Biological Cell Lysates
Browse ProSpec Recombinant Proteins
Browse Proteins at Cloud-Clone Corp.

 
Search eBioscience for Proteins for RARB 

 
antibodies-online proteins for RARB (7 products) 

 
antibodies-online peptides for RARB

RARB Antibody Products:

Browse EMD Millipore's Extensive Line of Mono- and Polyclonal Antibodies
R&D Systems Antibodies for RARB (RAR beta/NR1B2)
OriGene Antibodies for RARB
OriGene Custom Antibody Services for RARB
Novus Biologicals RARB Antibodies
Abcam antibodies for RARB
Browse Antibodies at Cloud-Clone Corp.
ThermoFisher Antibody for RARB
antibodies-online antibodies for RARB (85 products) 

RARB Assay Products:

Browse Kits and Assays available from EMD Millipore
OriGene Custom Assay Services for RARB
Browse R&D Systems for biochemical assays
GenScript Custom Assay Services for RARB
Browse Enzo Life Sciences for kits & assays
Browse ELISAs at Cloud-Clone Corp.
Browse CLIAs at Cloud-Clone Corp.
Search eBioscience for ELISAs for RARB 
antibodies-online kits for RARB (9 products) 


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
NR: Nuclear hormone receptors

IUPHAR Guide to PHARMACOLOGY protein family classification: Retinoic acid receptor-beta
1B. Retinoic acid receptors

Selected InterPro protein domains (see all 6):
 IPR008946 Nucl_hormone_rcpt_ligand-bd
 IPR001723 Str_hrmn_rcpt
 IPR003078 Retinoic_acid_rcpt
 IPR013088 Znf_NHR/GATA
 IPR000536 Nucl_hrmn_rcpt_lig-bd_core

Graphical View of Domain Structure for InterPro Entry P10826

ProtoNet protein and cluster: P10826

2 Blocks protein domains:
IPB001723 Steroid hormone receptor signature
IPB003078 Retinoic acid receptor (1B nuclear receptor) signature


UniProtKB/Swiss-Prot: RARB_HUMAN, P10826
Domain: Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal
ligand-binding domain
Similarity: Belongs to the nuclear hormone receptor family. NR1 subfamily
Similarity: Contains 1 nuclear receptor DNA-binding domain


Find genes that share domains with RARB           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: RARB_HUMAN, P10826
Function: Receptor for retinoic acid. Retinoic acid receptors bind as heterodimers to their target response
elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various
biological processes. The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of
tandem 5'-AGGTCA-3' sites known as DR1-DR5. In the absence or presence of hormone ligand, acts mainly as an
activator of gene expression due to weak binding to corepressors. In concert with RARG, required for skeletal
growth, matrix homeostasis and growth plate function

     Genatlas biochemistry entry for RARB:
retinoic acid receptor binding and activated by both all-trans (T-RA) and its 9-cis isomer (9-cis-RA) retinoic
acids,beta subunit ,steroid/thyroid hormone receptor superfamily

     Gene Ontology (GO): Selected molecular function terms (see all 10):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003677DNA binding TAS2153268
GO:0003700sequence-specific DNA binding transcription factor activity ----
GO:0003707steroid hormone receptor activity IEA--
GO:0003708retinoic acid receptor activity IEA--
GO:0005515protein binding IPI7565739
     
Find genes that share ontologies with RARB           About GenesLikeMe


Phenotypes:
     Selected MGI mutant phenotypes (inferred from 5 alleles(MGI details for Rarb) (see all 20):
 behavior/neurological  cardiovascular system  craniofacial  digestive/alimentary  embryogenesis 
 endocrine/exocrine gland  growth/size/body  hearing/vestibular/ear  hematopoietic system  immune system 
 limbs/digits/tail  mortality/aging  muscle  nervous system  normal 

Find genes that share phenotypes with RARB           About GenesLikeMe

Animal Models:
     MGI mouse knock-outs for RARB: Rarbtm1Vgi Rarbtm2.1Ipc Rarbtm1Ipc Rarbtm1Mma

   genOway: Develop your customized and physiologically relevant rodent model for RARB

miRNA
Products:
    
miRTarBase miRNAs that target RARB:
hsa-mir-16-2-3p (MIRT004488)

Block miRNA regulation of human, mouse, rat RARB using miScript Target Protectors
Selected qRT-PCR Assays for microRNAs that regulate RARB (see all 55):
hsa-miR-520f hsa-miR-106a hsa-miR-15a hsa-miR-200a hsa-miR-29a hsa-miR-30d hsa-miR-449a hsa-miR-548m
SwitchGear 3'UTR luciferase reporter plasmidRARB 3' UTR sequence
Inhib. RNA
Products:
    
OriGene RNAi products in human, mouse, rat for RARB
Predesigned siRNA for gene silencing in human, mouse, rat RARB

Gene Editing
Products:
DNA2.0 Custom Protein Engineering Service for RARB

Clone
Products:
     
OriGene clones in human, mouse for RARB (see all 12)
OriGene ORF clones in mouse, rat for RARB
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
GenScript: all cDNA clones in your preferred vector (see all 2): RARB (NM_016152)
Browse Sino Biological Human cDNA Clones
DNA2.0 Custom Codon Optimized Gene Synthesis Service for RARB
Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RARB

Cell Line
Products:
     
GenScript Custom overexpressing Cell Line Services for RARB
Browse ESI BIO Cell Lines and PureStem Progenitors for RARB 
In Situ Assay
Products:
   

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RARB


(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
RARB_HUMAN, P10826: Isoform Beta-1: Nucleus
RARB_HUMAN, P10826: Isoform Beta-2: Nucleus
RARB_HUMAN, P10826: Isoform Beta-4: Cytoplasm
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
nucleus5
cytoskeleton1
peroxisome1

Gene Ontology (GO): 3 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005634nucleus IDA18845237
GO:0005654nucleoplasm TAS--
GO:0005737cytoplasm IEA--

Find genes that share ontologies with RARB           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for RARB About   (see all 13)  
See pathways by source

SuperPathContained pathways About
1Nuclear Receptor transcription pathway
Nuclear Receptor transcription pathway0.67
Nuclear Receptors0.67
2Gene Expression
Generic Transcription Pathway0.40
Gene Expression0.40
3PEDF Induced Signaling
all-trans-Retinoic Acid Signaling in Brain0.71
4Apoptotic Pathways in Synovial Fibroblasts
Nuclear Receptor Activation by Vitamin-A0.57
5Glioma
Non-small cell lung cancer0.51


Find genes that share SuperPaths with RARB           About GenesLikeMe

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways

4 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for RARB
    Nuclear Receptor Activation by Vitamin-A
Molecular Mechanisms of Cancer
all-trans-Retinoic Acid Signaling in Brain
all-trans-Retinoic Acid Mediated Apoptosis

1 GeneGo (Thomson Reuters) Pathway for RARB
    Transcription Sin3 and NuRD in transcription regulation

4 BioSystems Pathways for RARB
    Nuclear Receptors
Vitamin A and carotenoid metabolism
Nuclear receptors in lipid metabolism and toxicity
Integrated Pancreatic Cancer Pathway

1 Reactome Pathway for RARB
    Nuclear Receptor transcription pathway


3 Kegg Pathways  (Kegg details for RARB):
    Pathways in cancer
Small cell lung cancer
Non-small cell lung cancer

    Pathway & Disease-focused RT2 Profiler PCR Arrays including RARB (see all 6): 
          Lung Cancer in human mouse rat
          Breast Cancer in human mouse rat
          Polycomb & Trithorax Target Genes in human mouse rat
          Prostate Cancer in human mouse rat
          Nuclear Receptors & Coregulators in human mouse rat

Interactions:

    GeneGlobe Interaction Network for RARB

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

Selected Interacting proteins for RARB (P108261, 2, 3 ENSP000003322964) via UniProtKB, MINT, STRING, and/or I2D (see all 70)
InteractantInteraction Details
GeneCardExternal ID(s)
SMAD2Q157962, 3MINT-61612 I2D: score=3 
PRKD2Q9BZL62, 3MINT-61761 I2D: score=2 
ENSG00000227322P287023, ENSP000004025904I2D: score=2 STRING: ENSP00000402590
RXRBP287023, ENSP000003638124I2D: score=2 STRING: ENSP00000363812
ENSG00000206289P287023I2D: score=2 
About this table

Gene Ontology (GO): Selected biological process terms (see all 24):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000122negative regulation of transcription from RNA polymerase II promoter IEA--
GO:0001657ureteric bud development IEA--
GO:0003417growth plate cartilage development IEA--
GO:0006355regulation of transcription, DNA-templated ----
GO:0006367transcription initiation from RNA polymerase II promoter TAS--

Find genes that share ontologies with RARB           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Compounds for RARB available from Tocris Bioscience    About this table
CompoundAction CAS #
Liarozole hydrochlorideBlocks retinoic acid metabolism[145858-50-0]
BMS 195614Selective RARalpha antagonist[253310-42-8]
FenretinideSynthetic retinoid. Potent anticancer agent[65646-68-6]
BMS 493Pan-RAR inverse agonist[215030-90-3]
CD 1530Potent and selective RARgamma agonist[107430-66-0]

1 HMDB Compound for RARB    About this table
CompoundSynonyms CAS #PubMed Ids
Retinoic acidRetinoate (see all 21)302-79-4--

7 DrugBank Compounds for RARB    About this table
CompoundSynonyms CAS #TypeActionsPubMed Ids
Alitretinoin9-cis-Retinoic acid (see all 4)5300-03-8targetagonist16253547 19678713 16128742 16531051 16297713 16316409
AdapaleneAdapaleno [INN-Spanish] (see all 2)106685-40-9targetagonist9990413 11752352 9557255 9204085
TamibaroteneAm 80 (see all 2)94497-51-5targetagonist17611697 17925887 15563242 15843826
Tazarotene-- 118292-40-3targetagonist18034539 12942109 15102095 9035701
Acitretin-- 55079-83-9targetagonist7755585 19144697 11586072
Etretinate-- 54350-48-0targetagonist9298126 8301142
TTNPB(E)-4-[2-(5,6,7,8-tetrahydro-5,5,8,8-tetramethyl-2-naphthylenyl)-1 -propenyl] benzoic acid (see all 8)71441-28-6target--15546741 10592235

9 IUPHAR Ligands for RARB (Retinoic acid receptor-beta)    About this table
LigandTypeActionAffinityPubmed IDs
9-cis-retinoic acid
AgonistAgonist9.77791761 10964567
all-trans-retinoic acid
AgonistAgonist9.410637371 8264595 10964567 7791761
AGN193109
AntagonistInverse agonist8.710777502 10637371 8798442
BMS641
AgonistAgonist8.615319780
BMS493
AntagonistInverse agonist8.5411805839
AC261066
AgonistFull agonist7.9 - 8.116302793
TTNPB
AgonistAgonist810637371 8264595 10964567 7791761
AC55649
AgonistFull agonist6.5 - 7.316302793
CD666
AgonistAgonist5.641323296

Selected Novoseek inferred chemical compound relationships for RARB gene (see all 71)    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
retinoic acid 95.9 1504 8707417 (10), 8034721 (7), 10866321 (7), 7998926 (7) (see all 99)
retinoid 94.2 166 10369704 (4), 12767074 (4), 9425148 (3), 8954130 (3) (see all 98)
ch 55 86.6 4 7556191 (1), 2154975 (1), 10747926 (1), 11769677 (1)
ttnpb 82.8 3 2175182 (1), 9006080 (1)
cd 2019 82.7 5 8216300 (2), 19800972 (1), 10374844 (1), 11726401 (1)
am 580 80.3 12 18271925 (3), 8216300 (2), 12504905 (1), 11726401 (1) (see all 6)
ttnn 79.2 1 7812950 (1)
cd 437 78.7 5 8216300 (2), 10953043 (1), 10374844 (1), 9516142 (1)
am80 76.6 1 2154975 (1)
sr 11217 74.5 1 7812950 (1)



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(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for RARB gene (8 alternative transcripts): 
NM_000965.4  NM_001290216.1  NM_001290217.1  NM_001290266.1  NM_001290276.1  NM_001290277.1  NM_001290300.1  NM_016152.3  

Unigene Cluster for RARB:

Retinoic acid receptor, beta
Hs.654490  [show with all ESTs]
Unigene Representative Sequence: NM_000965
9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000383772 ENST00000437042(uc003cdi.2) ENST00000330688(uc003cdh.3)
ENST00000489694 ENST00000480001 ENST00000462272 ENST00000479097 ENST00000458646(uc011awl.2)
ENST00000404969
miRNA
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Block miRNA regulation of human, mouse, rat RARB using miScript Target Protectors
Selected qRT-PCR Assays for microRNAs that regulate RARB (see all 55):
hsa-miR-520f hsa-miR-106a hsa-miR-15a hsa-miR-200a hsa-miR-29a hsa-miR-30d hsa-miR-449a hsa-miR-548m
SwitchGear 3'UTR luciferase reporter plasmidRARB 3' UTR sequence
Inhib. RNA
Products:
     
OriGene RNAi products in human, mouse, rat for RARB
Predesigned siRNA for gene silencing in human, mouse, rat RARB
Clone
Products:
     
OriGene clones in human, mouse for RARB (see all 12)
OriGene ORF clones in mouse, rat for RARB
OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
GenScript: all cDNA clones in your preferred vector (see all 2): RARB (NM_016152)
DNA2.0 Custom Codon Optimized Gene Synthesis Service for RARB
Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RARB
Primer
Products:
    
OriGene qPCR primer pairs and template standards for RARB
OriGene qSTAR qPCR primer pairs in human, mouse for RARB
Pre-validated RT2 qPCR Primer Assay in human, mouse, rat RARB
  QuantiTect SYBR Green Assays in human, mouse, rat RARB
  QuantiFast Probe-based Assays in human, mouse, rat RARB

Additional mRNA sequence: 

AB307688.1 AF157483.1 AK292032.1 AK299756.1 AY501390.1 BC030234.1 BC050415.2 BC060794.1 
BC069735.1 CR536558.1 DQ083391.1 HQ692863.1 HQ692864.1 M62303.1 X07282.1 Y00291.1 

6 DOTS entries:

DT.100748508  DT.414721  DT.120925299  DT.120925216  DT.100679239  DT.91797951 

Selected AceView cDNA sequences (see all 91):

CA390471 BM722961 CR536558 CA447720 AL547687 AA917936 N66800 AA147673 
BM727498 BM719146 CD679225 CA392074 CR621137 AA419238 BU740742 AF157483 
BF062606 CD014020 BC030234 CD014021 CD014022 BX390267 AI928002 AI004107 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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RARB expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAGTCTCCTG
RARB Expression
About this image


RARB expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 16) fully expand
 
 Tooth (Integumentary System)    fully expand to see all 5 entries
         Odontoblasts Dentin
         Dentin
 
 Bone (Muscoskeletal System)    fully expand to see all 4 entries
         Bone Marrow
         HyStem+TGFbeta3+GDF5-induced MEL2 cells
 
 Kidney (Urinary System)
         Interstitial Stroma Cells Interstitial Stroma
 
 Brain (Nervous System)    fully expand to see all 4 entries
         Cerebellum
 
 NULL (Uncategorized)    fully expand to see all 3 entries
         Definitive endoderm-like cells
RARB Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

RARB Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.654490
    Pathway & Disease-focused RT2 Profiler PCR Arrays including RARB (see all 6): 
          Lung Cancer in human mouse rat
          Breast Cancer in human mouse rat
          Polycomb & Trithorax Target Genes in human mouse rat
          Prostate Cancer in human mouse rat
          Nuclear Receptors & Coregulators in human mouse rat

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Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RARB

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for RARB gene from Selected species (see all 15)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Rarb1 , 5 retinoic acid receptor, beta1, 5 91(n)1
98.44(a)1
  14 (7.08 cM)5
2187721  NM_011243.11  NP_035373.11 
 164308395 
chicken
(Gallus gallus)
Aves RARB1 retinoic acid receptor, beta 86.45(n)
96.21(a)
  396266  NM_205326.1  NP_990657.1 
lizard
(Anolis carolinensis)
Reptilia RARB6
retinoic acid receptor, beta
94(a)
1 ↔ 1
GL343380.1(790801-902499)
African clawed frog
(Xenopus laevis)
Amphibia LOC3979832 retinoic acid receptor gamma isoform 2.1 77.79(n)    S82173.1 
zebrafish
(Danio rerio)
Actinopterygii rarga1 retinoic acid receptor gamma a 68.44(n)
75.93(a)
  30606  NM_131339.1  NP_571414.1 


ENSEMBL Gene Tree for RARB (if available)
TreeFam Gene Tree for RARB (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for RARB gene
VDR2  PPARD2  RARG2  NR1I22  PPARA2  THRB2  RARA2  NR1H42  
NR1D22  RORA2  RORB2  RORC2  NR1D12  NR1I32  PPARG2  NR1H22  
THRA2  NR1H32  
Selected SIMAP similar genes for RARB using alignment to 6 protein entries:     RARB_HUMAN (see all proteins) (see all similar genes):
NR1B2    RARG    BCOR-RARA    RARA    PML-RAR    NR1B3
NR1B1    HNF4G    NR6A1    PRKAR1A/RARA fusion    RORA    DKFZp761C0417
NR5A1    HNF4alpha    NR2C2    ESR1    NR3C2    DKFZp779O0162

Find genes that share paralogs with RARB           About GenesLikeMe



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for RARB (see all 4105)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 3 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
VAR_0707804
Microphthalmia, syndromic, 12 (MCOPS12)4--see VAR_0707802 R C mis40--------
VAR_0360604
A colorectal cancer sample4--see VAR_0360602 V I mis40--------
VAR_0707814
Microphthalmia, syndromic, 12 (MCOPS12)4--see VAR_0707812 R S mis40--------
rs1503497311,2
C--25406945(+) AAACAC/GAGATT 1 -- us2k10--------
rs1815379781,2
--25406992(+) TCAATA/GGCAAG 2 -- us2k10--------
rs1438928241,2
C--25407083(+) ACTTTC/TCATGT 2 -- us2k10--------
rs1870260581,2
--25407178(+) AGGCCC/TGGATG 2 -- us2k10--------
rs1465614541,2
--25407220(+) GGAGAC/TTGGAG 2 -- us2k10--------
rs1911141731,2
--25407451(+) TCTCCA/CTCCGG 2 -- us2k10--------
rs1390066171,2
C--25407583(+) TACTGG/TATTTT 2 -- us2k10--------

HapMap Linkage Disequilibrium report for RARB (25215823 - 25465823 bp, first 250kb of RARB)

Structural Variations
     Database of Genomic Variants (DGV) 7 variations for RARB:    About this table    
Variant IDTypeSubtypePubMed ID
esv2743257CNV Deletion23290073
esv2725053CNV Deletion23290073
dgv814e201CNV Deletion23290073
nsv3735CNV Loss18451855
nsv528608CNV Gain19592680
nsv834645CNV Gain17160897
nsv528280CNV Gain19592680

Human Gene Mutation Database (HGMD): RARB
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing RARB
DNA2.0 Custom Variant and Variant Library Synthesis for RARB

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 180220   
OMIM disorders: 615524  
16 diseases for RARB:    
About MalaCards
hepatitis b    microphthalmia, syndromic 12    matthew-wood syndrome    chromosome 3p deletion
hepatitis    lung adenoma    lichen sclerosus    leukoplakia
choroid plexus papilloma    variant creutzfeldt-jakob disease    craniopharyngioma    esophageal cancer
familial partial lipodystrophy    hepatocellular carcinoma    lung cancer    colorectal cancer

1 disease from the University of Copenhagen DISEASES database for RARB:
Lung cancer

Find genes that share disorders with RARB           About GenesLikeMe

Selected Novoseek inferred disease relationships for RARB gene (see all 88)    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
teratocarcinoma 71 5 1323569 (1), 9419418 (1), 8353043 (1), 9457077 (1) (see all 5)
carcinoma embryonal 70.4 5 9140065 (1), 2162058 (1), 1379266 (1), 7731708 (1) (see all 5)
premalignant 67 26 11848477 (5), 7723796 (3), 15010078 (2), 15173091 (1) (see all 13)
leukemia promyelocytic acute 62.1 4 8801177 (1), 15189119 (1), 19317219 (1)
tumors 56.8 206 8180126 (3), 12469153 (3), 14715861 (3), 17998817 (3) (see all 99)
cancer lung 56.6 73 9426695 (4), 1717924 (4), 7923214 (3), 16841329 (2) (see all 33)
carcinoma squamous cell 54.7 40 11173543 (4), 9426070 (3), 12839965 (2), 10416619 (2) (see all 24)
hnscc 54.7 28 15959780 (5), 8012985 (3), 19885608 (2), 11687961 (2) (see all 8)
squamous cell lung cancer 53 1 8381540 (1)
cancer 52.9 76 10629053 (5), 12516107 (3), 8657191 (3), 9255592 (2) (see all 49)

Genetic Association Database (GAD): RARB
Human Genome Epidemiology (HuGE) Navigator: RARB (20 documents)
Tumor Gene Database (TGDB): RARB

Export disorders for RARB gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for RARB gene, integrated from 10 sources (see all 744):
(articles sorted by number of sources associating them with RARB)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Association analysis of retinoic acid receptor beta (RARbeta) gene with high myopia in Chinese subjects. (PubMed id 20508731)1, 4, 9 Ding Y....Zhou X. (Mol. Vis. 2010)
  2. DNA methylation of genes linked to retinoid signaling in squamous cell carcinoma of the esophagus: DNA methylation of CRBP1 and TIG1 is associated with tumor stage. (PubMed id 16128742)1, 7, 9 Mizuiri H....Yasui W. (Cancer Sci. 2005)
  3. Retinoic acid receptors beta and gamma do not repress, but instead activate target gene transcription in both the absence and presence of hormone ligand. (PubMed id 12554770)1, 2, 9 Hauksdottir H.... Privalsky M.L. (Mol. Endocrinol. 2003)
  4. Mouse and human retinoic acid receptor beta 2 promoters: sequence comparison and localization of retinoic acid responsiveness. (PubMed id 1663808)1, 2, 9 Shen S.... Kruijer W. (DNA Seq. 1991)
  5. Elevated retinoic acid receptor beta(4) protein in human breast tumor cells with nuclear and cytoplasmic localization. (PubMed id 10411930)1, 2, 9 Sommer K.M.... Swisshelm K. (Proc. Natl. Acad. Sci. U.S.A. 1999)
  6. Fetal isoform of human retinoic acid receptor beta expressed in small cell lung cancer lines. (PubMed id 8275470)1, 2, 9 Houle B.... Bradley W.E. (Cancer Res. 1994)
  7. Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. (PubMed id 21946350)1, 4 Soler Artigas M....Tobin M.D. (Nat. Genet. 2011)
  8. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
  9. Physiogenomic analysis of statin-treated patients: domain-specific counter effects within the ACACB gene on low-density lipoprotein cholesterol? (PubMed id 20602615)1, 4 RuaA+o G....Wu A.H. (Pharmacogenomics 2010)
  10. Rubella vaccine-induced cellular immunity: evidence of associations with polymorphisms in the Toll-like, vitamin A and D receptors, and innate immune response genes. (PubMed id 19902255)1, 4 Ovsyannikova I.G....Poland G.A. (Hum. Genet. 2010)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 5915 HGNC: 9865 AceView: RARB Ensembl:ENSG00000077092 euGenes: HUgn5915
ECgene: RARB Kegg: 5915 H-InvDB: RARB

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for RARB Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for RARB Genetics and Cytogenetics in Oncology and Haematology

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for RARB gene:
Search GeneIP for patents involving RARB

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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