VDR vitamin D receptor [Sus scrofa (pig)] - Gene

Summary

Official Symbol: VDRprovided by VGNC
Official Full Name: vitamin D receptorprovided by VGNC
Primary source: VGNC:VGNC:94814
See related: Ensembl:ENSSSCG00000020864
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Sus scrofa
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Also known as: NR1I1
Expression: Biased expression in kidney (RPKM 13.6), mixtures (RPKM 2.5) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
106	current	Sscrofa11.1 (GCF_000003025.6)	5	NC_010447.5 (78205807..78266505, complement)
105	previous assembly	Sscrofa10.2 (GCF_000003025.5)	5	NC_010447.4 (81279217..81338475, complement)

Chromosome 5 - NC_010447.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
BioProject: PRJNA311523
Publication: PMID 27646534
Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Reduced Vitamin D receptor is associated with melanoma.
Title: Vitamin D receptor and CD86 expression in the skin of vitamin D-deficient swine.
Expression of TauT is differentially regulated by Vitamin D(3) and retinoic acid via formation of VDR and RXR complexes in the nuclei in a cell type-dependent manner.
Title: Differential regulation of TauT by calcitriol and retinoic acid via VDR/RXR in LLC-PK1 and MCF-7 cells.
The expression of TNF-alpha and VDR in post-angioplasty coronary artery neointimal lesions of hypercholesterolemic swine, was examined.
Title: Decreased expression of vitamin D receptors in neointimal lesions following coronary artery angioplasty in atherosclerotic swine.

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General gene information

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Gene Ontology Provided by RefSeq

Function	Evidence Code	Pubs
enables nuclear receptor activity	IEA Inferred from Electronic Annotation more info	PubMed
enables vitamin D response element binding	IEA Inferred from Electronic Annotation more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info	PubMed

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info	PubMed
involved_in multicellular organism development	IEA Inferred from Electronic Annotation more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info	PubMed

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 (1,25- dihydroxyvitamin D3) 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_001097414.1 → NP_001090883.1 vitamin D3 receptor

See identical proteins and their annotated locations for NP_001090883.1

Status: PROVISIONAL

Source sequence(s)

EF405627

UniProtKB/Swiss-Prot

A3RGC1

UniProtKB/TrEMBL

A0A8D0TRQ3

Related

ENSSSCP00000019810.3, ENSSSCT00000032274.3

Conserved Domains (2) summary

cd06933
Location:124 → 426

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

RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...

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

Reference Sscrofa11.1 Primary Assembly

Genomic

NC_010447.5 Reference Sscrofa11.1 Primary Assembly

Range

78205807..78266505 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021091108.1 → XP_020946767.1 vitamin D3 receptor isoform X1

Conserved Domains (2) summary

cd06955
Location:16 → 122

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

cl11397
Location:124 → 312

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_021091109.1 → XP_020946768.1 vitamin D3 receptor isoform X2

UniProtKB/TrEMBL

A0A8D0TRQ3

Conserved Domains (2) summary

cd06933
Location:73 → 375

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

cl02596
Location:1 → 71

NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers