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    Rora RAR-related orphan receptor A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300807, updated on 2-Nov-2024

    Summary

    Symbol
    Roraprovided by RGD
    Full Name
    RAR-related orphan receptor Aprovided by RGD
    Primary source
    RGD:1308419
    See related
    EnsemblRapid:ENSRNOG00000077683 AllianceGenome:RGD:1308419
    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
    The protein encoded by this gene is a member of the NR1 subfamily of nuclear hormone receptors. It can bind as a monomer or as a homodimer to hormone response elements upstream of several genes to enhance the expression of those genes. The encoded protein has been shown to interact with NM23-2, a nucleoside diphosphate kinase involved in organogenesis and differentiation, as well as with NM23-1, the product of a tumor metastasis suppressor candidate gene. Also, it has been shown to aid in the transcriptional regulation of some genes involved in circadian rhythm. [provided by RefSeq, Feb 2014]
    Expression
    Biased expression in Adrenal (RPKM 181.6), Muscle (RPKM 180.7) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Rora in Genome Data Viewer
    Location:
    8q24
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (78182710..78915730)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (69301635..70034741)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (75515886..75616477)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479977 Neighboring gene uncharacterized LOC134480200 Neighboring gene uncharacterized LOC134480199 Neighboring gene uncharacterized LOC120094342 Neighboring gene interactor of little elongation complex ELL subunit 2 Neighboring gene annexin A2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables beta-catenin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ligand-activated transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables nuclear receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables oxysterol binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables oxysterol binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coactivator binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coregulator binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription corepressor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in T-helper 17 cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in angiogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cGMP metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to hypoxia ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to interleukin-1 ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to sterol ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to tumor necrosis factor ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cerebellar Purkinje cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cerebellar granule cell precursor proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in circadian regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in circadian rhythm IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in intracellular receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of fat cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within nitric oxide biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of circadian rhythm ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of vascular endothelial growth factor production ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of circadian rhythm ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of glucose metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of macrophage activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of smoothened signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of steroid metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in triglyceride homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in xenobiotic metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    nuclear receptor ROR-alpha
    Names
    RAR-related orphan receptor alpha
    nuclear receptor ROR-alpha-like

    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_001427366.2NP_001414295.1  nuclear receptor ROR-alpha isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      F1LZZ3
      Related
      ENSRNOP00000101210.1, ENSRNOT00000142307.1
    2. NM_001427367.2NP_001414296.1  nuclear receptor ROR-alpha isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I6A803
      Related
      ENSRNOP00000112617.1, ENSRNOT00000148602.1

    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_086026.1 Reference GRCr8

      Range
      78182710..78915730
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039082824.2XP_038938752.1  nuclear receptor ROR-alpha isoform X1

      Conserved Domains (2) summary
      cd06939
      Location:272510
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:66160
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
    2. XM_063265167.1XP_063121237.1  nuclear receptor ROR-alpha isoform X3

    3. XM_063265166.1XP_063121236.1  nuclear receptor ROR-alpha isoform X2

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001106834.1: Suppressed sequence

      Description
      NM_001106834.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.