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    Vdr vitamin D (1,25- dihydroxyvitamin D3) receptor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24873, updated on 31-Oct-2016
    Official Symbol
    Vdrprovided by RGD
    Official Full Name
    vitamin D (1,25- dihydroxyvitamin D3) receptorprovided by RGD
    Primary source
    RGD:3959
    See related
    Ensembl:ENSRNOG00000054420
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Nr1i1
    Summary
    binds vitamin D3; acts as a transcriptional regulator of the osteocalcin gene [RGD, Feb 2006]
    Orthologs
    Location:
    7q36
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (139344452..139394138, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 7 NC_005106.3 (139536241..139585928, complement)

    Chromosome 7 - NC_005106.4Genomic Context describing neighboring genes Neighboring gene histone deacetylase 7 Neighboring gene uncharacterized LOC108351548 Neighboring gene uncharacterized LOC103692974 Neighboring gene transmembrane protein 106C Neighboring gene collagen type II alpha 1 chain

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • Endocrine and other factor-regulated calcium reabsorption, organism-specific biosystem (from KEGG)
      Endocrine and other factor-regulated calcium reabsorption, organism-specific biosystemCalcium (Ca2+) is essential for numerous physiological functions including intracellular signalling processes, neuronal excitability, muscle contraction and bone formation. Therefore, its homeostasis...
    • Endocrine and other factor-regulated calcium reabsorption, conserved biosystem (from KEGG)
      Endocrine and other factor-regulated calcium reabsorption, conserved biosystemCalcium (Ca2+) is essential for numerous physiological functions including intracellular signalling processes, neuronal excitability, muscle contraction and bone formation. Therefore, its homeostasis...
    • 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)
    • Mineral absorption, organism-specific biosystem (from KEGG)
      Mineral absorption, organism-specific biosystemMinerals are one of the five fundamental groups of nutrients needed to sustain life. Of the minerals, calcium plays innumerable roles in our bodies, serving as a main component of bone as well as an ...
    • Mineral absorption, conserved biosystem (from KEGG)
      Mineral absorption, conserved biosystemMinerals are one of the five fundamental groups of nutrients needed to sustain life. Of the minerals, calcium plays innumerable roles in our bodies, serving as a main component of bone as well as an ...
    • 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...
    • Nuclear receptors in lipid metabolism and toxicity, organism-specific biosystem (from WikiPathways)
      Nuclear receptors in lipid metabolism and toxicity, organism-specific biosystemNuclear receptors are transcription factors that are activated upon binding to its ligands. Initially, they had been classified as classic endocrine nuclear hormone receptors and orphan receptors. Ho...
    • Ovarian Infertility Genes, organism-specific biosystem (from WikiPathways)
      Ovarian Infertility Genes, organism-specific biosystemOvarian bottleneck genes associated with infertility. A valuable approach to the study of infertility is the comparison of mutations of individual human and mouse genes associated with infertility ph...
    • Tuberculosis, organism-specific biosystem (from KEGG)
      Tuberculosis, organism-specific biosystemTuberculosis, or TB, is an infectious disease caused by Mycobacterium tuberculosis. One third of the world's population is thought to be infected with TB. About 90% of those infected result in latent...
    • Tuberculosis, conserved biosystem (from KEGG)
      Tuberculosis, conserved biosystemTuberculosis, or TB, is an infectious disease caused by Mycobacterium tuberculosis. One third of the world's population is thought to be infected with TB. About 90% of those infected result in latent...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    calcitriol binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    calcitriol binding IEA
    Inferred from Electronic Annotation
    more info
     
    calcitriol binding ISO
    Inferred from Sequence Orthology
    more info
     
    calcitriol receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    calcitriol receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    calcitriol receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    lithocholic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    lithocholic acid binding ISO
    Inferred from Sequence Orthology
    more info
     
    lithocholic acid receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    lithocholic acid receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    retinoid X receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    retinoid X receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    sequence-specific DNA binding IDA
    Inferred from Direct Assay
    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
     
    contributes_to transcription factor activity, sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor activity, sequence-specific DNA binding TAS
    Traceable Author Statement
    more info
    PubMed 
    vitamin D binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    vitamin D binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    vitamin D response element binding IEA
    Inferred from Electronic Annotation
    more info
     
    contributes_to vitamin D response element binding ISO
    Inferred from Sequence Orthology
    more info
     
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    aging IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    animal organ morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    apoptotic signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    bile acid signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    bile acid signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    calcium ion transport IEA
    Inferred from Electronic Annotation
    more info
     
    calcium ion transport ISO
    Inferred from Sequence Orthology
    more info
     
    cell morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    cellular calcium ion homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    cellular calcium ion homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to vitamin D IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    decidualization IEA
    Inferred from Electronic Annotation
    more info
     
    decidualization ISO
    Inferred from Sequence Orthology
    more info
     
    heart development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    intestinal absorption IEA
    Inferred from Electronic Annotation
    more info
     
    intestinal absorption ISO
    Inferred from Sequence Orthology
    more info
     
    lactation IEA
    Inferred from Electronic Annotation
    more info
     
    lactation ISO
    Inferred from Sequence Orthology
    more info
     
    mammary gland branching involved in pregnancy IEA
    Inferred from Electronic Annotation
    more info
     
    mammary gland branching involved in pregnancy ISO
    Inferred from Sequence Orthology
    more info
     
    multicellular organism development ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of keratinocyte proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of keratinocyte proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription from RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of apoptotic process involved in mammary gland involution IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of apoptotic process involved in mammary gland involution ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of keratinocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of keratinocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription from RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of vitamin D 24-hydroxylase activity IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of vitamin D 24-hydroxylase activity ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of calcidiol 1-monooxygenase activity IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of calcidiol 1-monooxygenase activity ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of calcium ion transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription from RNA polymerase II promoter TAS
    Traceable Author Statement
    more info
    PubMed 
    regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    response to calcium ion IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to estradiol IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    skeletal system development IEA
    Inferred from Electronic Annotation
    more info
     
    skeletal system development ISO
    Inferred from Sequence Orthology
    more info
     
    steroid hormone mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    vitamin D receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    vitamin D receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    RNA polymerase II transcription factor complex IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II transcription factor complex ISO
    Inferred from Sequence Orthology
    more info
     
    T-tubule IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with caveola IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    dense fibrillar component IDA
    Inferred from Direct Assay
    more info
    PubMed 
    euchromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear heterochromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    receptor complex IEA
    Inferred from Electronic Annotation
    more info
     
    receptor complex ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    vitamin D3 receptor
    Names
    1,25-dihydroxyvitamin D3 receptor
    nuclear receptor subfamily 1 group I member 1
    vitamin D 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_017058.1NP_058754.1  vitamin D3 receptor

      See identical proteins and their annotated locations for NP_058754.1

      Status: PROVISIONAL

      Source sequence(s)
      J04147
      UniProtKB/Swiss-Prot
      P13053
      Related
      ENSRNOP00000070446, ENSRNOT00000082429
      Conserved Domains (2) summary
      cd06933
      Location:124422
      NR_LBD_VDR; The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily
      cd06955
      Location:16122
      NR_DBD_VDR; DNA-binding domain of vitamin D receptors (VDR) is composed of two C4-type zinc fingers

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005106.4 Reference Rnor_6.0 Primary Assembly

      Range
      139344452..139394138 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000075.1 Alternate Rn_Celera

      Range
      125479125..125528679 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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