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Vdr vitamin D (1,25-dihydroxyvitamin D3) receptor [ Mus musculus (house mouse) ]

Gene ID: 22337, updated on 2-Jul-2024

Summary

Official Symbol
Vdrprovided by MGI
Official Full Name
vitamin D (1,25-dihydroxyvitamin D3) receptorprovided by MGI
Primary source
MGI:MGI:103076
See related
Ensembl:ENSMUSG00000022479 AllianceGenome:MGI:103076
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Nr1i1
Summary
Enables DNA binding activity and nuclear receptor activity. Involved in regulation of calcidiol 1-monooxygenase activity. Acts upstream of or within several processes, including intestinal absorption; mammary gland development; and positive regulation of apoptotic process involved in mammary gland involution. Predicted to be located in several cellular components, including T-tubule; chromatin; and nuclear lumen. Predicted to be part of RNA polymerase II transcription regulator complex and receptor complex. Predicted to colocalize with caveola. Is expressed in several structures, including alimentary system; metanephros; nervous system; sensory organ; and skeleton. Used to study osteoporosis and rickets. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); carcinoma (multiple); lipid storage disease (multiple); melanoma (multiple); and tuberculosis (multiple). Orthologous to human VDR (vitamin D receptor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in duodenum adult (RPKM 78.3), colon adult (RPKM 58.5) and 3 other tissues See more
Orthologs
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Genomic context

See Vdr in Genome Data Viewer
Location:
15 F1; 15 53.85 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (97752308..97806177, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (97854427..97908296, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 48 (heme transporter), member 1 Neighboring gene histone deacetylase 7 Neighboring gene STARR-positive B cell enhancer ABC_E10877 Neighboring gene STARR-positive B cell enhancer ABC_E1916 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:97659351-97659504 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:97666932-97667248 Neighboring gene predicted gene, 33636 Neighboring gene predicted gene, 33690 Neighboring gene STARR-seq mESC enhancer starr_39643 Neighboring gene predicted gene, 52171 Neighboring gene STARR-positive B cell enhancer mm9_chr15:97738623-97738923 Neighboring gene transmembrane protein 106C Neighboring gene collagen, type II, alpha 1 Neighboring gene predicted gene, 46536

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
contributes_to DNA-binding transcription factor activity 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 bile acid nuclear receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables calcitriol binding ISO
Inferred from Sequence Orthology
more info
 
enables lithocholic acid binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nuclear receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables nuclear receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables nuclear receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables nuclear retinoid X receptor 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 vitamin D binding ISO
Inferred from Sequence Orthology
more info
 
contributes_to vitamin D response element binding IBA
Inferred from Biological aspect of Ancestor
more info
 
contributes_to vitamin D response element binding ISO
Inferred from Sequence Orthology
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of apoptotic process involved in mammary gland involution IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in apoptotic signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in bile acid signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within calcium ion transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cell morphogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within intestinal absorption IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within intracellular calcium ion homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within lactation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mRNA transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mammary gland branching involved in pregnancy IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within multicellular organism development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in negative regulation of bone trabecula formation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of keratinocyte proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of ossification ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in phosphate ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of apoptotic process involved in mammary gland involution IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of bone mineralization NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of keratinocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of parathyroid hormone secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of vitamin D 24-hydroxylase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of vitamin D receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of calcidiol 1-monooxygenase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of calcium ion transport ISO
Inferred from Sequence Orthology
more info
 
involved_in response to bile acid ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within skeletal system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in vitamin D receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex ISO
Inferred from Sequence Orthology
more info
 
located_in T-tubule ISO
Inferred from Sequence Orthology
more info
 
colocalizes_with caveola ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in dense fibrillar component ISO
Inferred from Sequence Orthology
more info
 
part_of euchromatin ISO
Inferred from Sequence Orthology
more info
 
part_of heterochromatin ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
part_of receptor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
vitamin D3 receptor
Names
1,25-dihydroxyvitamin D3 receptor
nuclear receptor subfamily 1 group I member 1
vitamin D receptor

NCBI Reference Sequences (RefSeq)

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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_009504.4NP_033530.2  vitamin D3 receptor

    See identical proteins and their annotated locations for NP_033530.2

    Status: VALIDATED

    Source sequence(s)
    AC158787, AK030339
    Consensus CDS
    CCDS27784.1
    UniProtKB/Swiss-Prot
    P48281, Q922X0
    UniProtKB/TrEMBL
    Q3U0J7, Q4FJV8
    Related
    ENSMUSP00000023119.9, ENSMUST00000023119.15
    Conserved Domains (2) summary
    cd06933
    Location:124421
    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: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    97752308..97806177 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)