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    Rarb retinoic acid receptor, beta [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24706, updated on 27-Dec-2024

    Summary

    Symbol
    Rarbprovided by RGD
    Full Name
    retinoic acid receptor, betaprovided by RGD
    Primary source
    RGD:3535
    See related
    EnsemblRapid:ENSRNOG00000024061 AllianceGenome:RGD:3535
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables heterocyclic compound binding activity and nuclear retinoid X receptor binding activity. Involved in neural precursor cell proliferation and regulation of myelination. Predicted to be located in nucleoplasm. Human ortholog(s) of this gene implicated in asbestos-related lung carcinoma; lung adenocarcinoma; lung non-small cell carcinoma; lung small cell carcinoma; and syndromic microphthalmia 12. Orthologous to human RARB (retinoic acid receptor beta). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 117.5), Heart (RPKM 68.7) and 7 other tissues See more
    Orthologs
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    Genomic context

    See Rarb in Genome Data Viewer
    Location:
    15p16
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (10837252..11482037)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (8700533..9051288)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (9915223..10262599)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482182 Neighboring gene polypyrimidine tract binding protein 1, pseudogene 1 Neighboring gene DNA topoisomerase II beta Neighboring gene N-glycanase 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity  
    enables heterocyclic compound binding PubMed 
    enables nuclear receptor activity  
    enables nuclear receptor activity PubMed 
    enables nuclear retinoid X receptor binding PubMed 
    enables protein binding PubMed 
    enables protein-containing complex binding PubMed 
    enables sequence-specific DNA binding  
    enables sequence-specific double-stranded DNA binding  
    enables zinc ion binding  
    Items 1 - 25 of 27
    Process Evidence Code Pubs
    acts_upstream_of apoptotic process  
    acts_upstream_of_or_within bone development  
    acts_upstream_of cell population proliferation  
    involved_in embryonic digestive tract development  
    acts_upstream_of_or_within embryonic eye morphogenesis  
    acts_upstream_of_or_within embryonic hindlimb morphogenesis  
    acts_upstream_of_or_within glandular epithelial cell development  
    acts_upstream_of_or_within growth plate cartilage development  
    acts_upstream_of_or_within multicellular organism growth  
    involved_in negative regulation of apoptotic process  
    acts_upstream_of_or_within negative regulation of cartilage development  
    acts_upstream_of_or_within negative regulation of chondrocyte differentiation  
    acts_upstream_of_or_within negative regulation of stem cell proliferation  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II  
    involved_in neural precursor cell proliferation PubMed 
    acts_upstream_of_or_within neurogenesis  
    involved_in outflow tract septum morphogenesis  
    acts_upstream_of_or_within positive regulation of apoptotic process  
    acts_upstream_of_or_within positive regulation of programmed cell death  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    acts_upstream_of programmed cell death  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of myelination PubMed 
    acts_upstream_of stem cell proliferation  
    acts_upstream_of_or_within striatum development  
    acts_upstream_of_or_within ureteric bud development  
    acts_upstream_of_or_within ventricular cardiac muscle cell differentiation  
    Items 1 - 25 of 27
    Component Evidence Code Pubs
    located_in nucleoplasm  
    located_in nucleoplasm  
    located_in nucleus  

    General protein information

    Preferred Names
    retinoic acid receptor beta

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_031529.1NP_113717.1  retinoic acid receptor beta

      See identical proteins and their annotated locations for NP_113717.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I6AIB6, A6K045, D3ZFD9
      Related
      ENSRNOP00000036692.5, ENSRNOT00000033048.8
      Conserved Domains (2) summary
      cd06937
      Location:179409
      NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
      cd06964
      Location:75159
      NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086033.1 Reference GRCr8

      Range
      10837252..11482037
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017599578.3XP_017455067.1  retinoic acid receptor beta isoform X1

      UniProtKB/TrEMBL
      A0A8I6A7Z0, A0A8I6AIB6
      Related
      ENSRNOP00000098454.2, ENSRNOT00000120842.2
      Conserved Domains (2) summary
      cd06937
      Location:186416
      NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
      cd06964
      Location:82166
      NR_DBD_RAR; DNA-binding domain of retinoic acid receptor (RAR) is composed of two C4-type zinc fingers
    2. XM_017599579.3XP_017455068.1  retinoic acid receptor beta isoform X2

      UniProtKB/TrEMBL
      A0A8I6AIB6
      Conserved Domains (2) summary
      cd06937
      Location:67297
      NR_LBD_RAR; The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily
      cl02596
      Location:147
      NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
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