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    Rorc RAR-related orphan receptor gamma [ Mus musculus (house mouse) ]

    Gene ID: 19885, updated on 9-Jul-2016
    Official Symbol
    Rorcprovided by MGI
    Official Full Name
    RAR-related orphan receptor gammaprovided by MGI
    Primary source
    MGI:MGI:104856
    See related
    Ensembl:ENSMUSG00000028150 Vega:OTTMUSG00000022692
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    TOR; Thor; Nr1f3; RORgamma
    Orthologs
    Location:
    3; 3 F2
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 3 NC_000069.6 (94372717..94398276)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 3 NC_000069.5 (94176748..94202161)

    Chromosome 3 - NC_000069.6Genomic Context describing neighboring genes Neighboring gene C2 calcium-dependent domain containing 4D Neighboring gene predicted gene, 38411 Neighboring gene leucine rich repeat and Ig domain containing 4 Neighboring gene RIKEN cDNA 1700040D17 gene

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (4)  1 citation
    • Chemically induced (ENU) (2) 
    • Circadian rhythm, organism-specific biosystem (from KEGG)
      Circadian rhythm, organism-specific biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
    • Circadian rhythm, conserved biosystem (from KEGG)
      Circadian rhythm, conserved biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
    • Gene Expression, organism-specific biosystem (from REACTOME)
      Gene Expression, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
      Generic Transcription Pathway, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Inflammatory bowel disease (IBD), organism-specific biosystem (from KEGG)
      Inflammatory bowel disease (IBD), organism-specific biosystemInflammatory bowel disease (IBD), which includes Crohn disease (CD) and ulcerative colitis (UC), is characterized by chronic inflammation of the gastrointestinal tract due to environmental and geneti...
    • Inflammatory bowel disease (IBD), conserved biosystem (from KEGG)
      Inflammatory bowel disease (IBD), conserved biosystemInflammatory bowel disease (IBD), which includes Crohn disease (CD) and ulcerative colitis (UC), is characterized by chronic inflammation of the gastrointestinal tract due to environmental and geneti...
    • Nuclear Receptor transcription pathway, organism-specific biosystem (from REACTOME)
      Nuclear Receptor transcription pathway, organism-specific biosystemcomputationally inferred pathway (not manually curated)
    • Nuclear Receptors, organism-specific biosystem (from WikiPathways)
      Nuclear Receptors, organism-specific biosystemNuclear receptors are a class of proteins found within the interior of cells that are responsible for sensing the presence of steroid and thyroid hormones and certain other molecules. In response, th...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    oxysterol binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    steroid hormone receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    transcription coactivator binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor activity, direct ligand regulated sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor activity, sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    T cell differentiation in thymus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    T-helper 17 cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    adipose tissue development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    alpha-beta T cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular response to sterol ISO
    Inferred from Sequence Orthology
    more info
     
    circadian regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    interleukin-17 production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lymph node development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    mucosal-associated lymphoid tissue development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of circadian rhythm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of fat cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of gamma-delta T cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of glucose metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of steroid metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    rhythmic process IEA
    Inferred from Electronic Annotation
    more info
     
    steroid hormone mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    xenobiotic metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    nuclear receptor ROR-gamma
    Names
    RAR-related orphan receptor C
    nuclear receptor RZR-gamma
    nuclear receptor subfamily 1 group F member 3
    retinoid-related orphan receptor-gamma
    thymus orphan receptor

    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_001293734.1NP_001280663.1  nuclear receptor ROR-gamma isoform 2

      See identical proteins and their annotated locations for NP_001280663.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has a different 5' structure, lacks a portion of the 5' coding region, and initiates translation from an alternate start codon compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AC164562, AF163668
      Consensus CDS
      CCDS79971.1
      UniProtKB/Swiss-Prot
      P51450
      UniProtKB/TrEMBL
      A0A0G2JGZ6
      Related
      ENSMUSP00000143763, OTTMUSP00000025974, ENSMUST00000197040, OTTMUST00000054424
      Conserved Domains (2) summary
      cd06939
      Location:245483
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:497
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
    2. NM_011281.3NP_035411.2  nuclear receptor ROR-gamma isoform 1

      See identical proteins and their annotated locations for NP_035411.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shortest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC164562
      Consensus CDS
      CCDS17591.1
      UniProtKB/Swiss-Prot
      P51450
      UniProtKB/TrEMBL
      A0A0R4J096
      Related
      ENSMUSP00000029795, OTTMUSP00000025973, ENSMUST00000029795, OTTMUST00000054423
      Conserved Domains (2) summary
      cd06939
      Location:266504
      NR_LBD_ROR_like; The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily
      cd06968
      Location:24118
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers

    RNA

    1. NR_121656.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has a different 5' structure and uses an alternate splice site in an internal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC164562, AK137866

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000069.6 Reference GRCm38.p4 C57BL/6J

      Range
      94372717..94398276
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006501164.3XP_006501227.1  

      Conserved Domains (2) summary
      cd06968
      Location:24118
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
      cl11397
      Location:266311
      NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
    2. XM_006501163.2XP_006501226.1  

      Conserved Domains (2) summary
      cd06968
      Location:24118
      NR_DBD_ROR; DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers
      cl11397
      Location:266311
      NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
    3. XM_006501162.3XP_006501225.3