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

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: human all
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Genomic context

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_000081.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

VDR Activation Attenuates Renal Tubular Epithelial Cell Ferroptosis by Regulating Nrf2/HO-1 Signaling Pathway in Diabetic Nephropathy.
Title: VDR Activation Attenuates Renal Tubular Epithelial Cell Ferroptosis by Regulating Nrf2/HO-1 Signaling Pathway in Diabetic Nephropathy.
Vitamin D Receptor Activation Reduces Hepatic Inflammation via Enhancing Macrophage Autophagy in Cholestatic Mice.
Title: Vitamin D Receptor Activation Reduces Hepatic Inflammation via Enhancing Macrophage Autophagy in Cholestatic Mice.
Adrenomedullin, transcriptionally regulated by vitamin D receptors, alleviates atherosclerosis in mice through suppressing AMPK-mediated endothelial ferroptosis.
Title: Adrenomedullin, transcriptionally regulated by vitamin D receptors, alleviates atherosclerosis in mice through suppressing AMPK-mediated endothelial ferroptosis.
Effects of Topical 1,25 and 24,25 Vitamin D on Diabetic, Vitamin D Deficient and Vitamin D Receptor Knockout Mouse Corneal Wound Healing.
Title: Effects of Topical 1,25 and 24,25 Vitamin D on Diabetic, Vitamin D Deficient and Vitamin D Receptor Knockout Mouse Corneal Wound Healing.
VDR is an essential regulator of hair follicle regression through the progression of cell death.
Title: VDR is an essential regulator of hair follicle regression through the progression of cell death.
Secondary bile acids function through the vitamin D receptor in myeloid progenitors to promote myelopoiesis.
Title: Secondary bile acids function through the vitamin D receptor in myeloid progenitors to promote myelopoiesis.
Vitamin D Receptor From VSMCs Regulates Vascular Calcification During CKD: A Potential Role for miR-145a.
Title: Vitamin D Receptor From VSMCs Regulates Vascular Calcification During CKD: A Potential Role for miR-145a.
Vitamin D receptor cross-talk with p63 signaling promotes epidermal cell fate.
Title: Vitamin D receptor cross-talk with p63 signaling promotes epidermal cell fate.
The vitamin D receptor in osteoblastic cells but not secreted parathyroid hormone is crucial for soft tissue calcification induced by the proresorptive activity of 1,25(OH)2D3.
Title: The vitamin D receptor in osteoblastic cells but not secreted parathyroid hormone is crucial for soft tissue calcification induced by the proresorptive activity of 1,25(OH)(2)D(3).
Vitamin D Receptor Deficiency Upregulates Pulmonary Artery Kv7 Channel Activity.
Title: Vitamin D Receptor Deficiency Upregulates Pulmonary Artery Kv7 Channel Activity.

Submit: New GeneRIF Correction See all GeneRIFs (285)

Variation

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Alleles

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

Targeted (13) 1 citation
Endonuclease-mediated (8) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Vdr (e-PCR), detects polymorphism
- UniSTS:498456

PMC23328P1 (e-PCR)
- UniSTS:272195

Vdr (e-PCR), detects polymorphism
- UniSTS:144750

Vdr (e-PCR), detects polymorphism
- UniSTS:507306

Vdr (e-PCR), detects polymorphism
- UniSTS:536556

Vdr (e-PCR), detects polymorphism
- UniSTS:498416

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

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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)

NM_009504.4 → NP_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:124 → 421

NR_LBD_VDR; The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily

cd06955
Location:16 → 122

NR_DBD_VDR; DNA-binding domain of vitamin D receptors (VDR) is composed of two C4-type zinc fingers