Nr1i2 nuclear receptor subfamily 1, group I, member 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nr1i2provided by MGI
Official Full Name: nuclear receptor subfamily 1, group I, member 2provided by MGI
Primary source: MGI:MGI:1337040
See related: Ensembl:ENSMUSG00000022809 AllianceGenome:MGI:1337040
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: PXR; SXR; PXR1; mPXR; PXR.1; PXR.2
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and nuclear receptor activity. Acts upstream of or within positive regulation of gene expression. Part of transcription regulator complex. Is expressed in several structures, including branchial arch; ear; genitourinary system; liver; and nervous system. Orthologous to human NR1I2 (nuclear receptor subfamily 1 group I member 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in duodenum adult (RPKM 31.9), large intestine adult (RPKM 23.5) and 8 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 B3; 16 26.64 cM

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (38068711..38115211, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (38248349..38294849, complement)

Chromosome 16 - NC_000082.7 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?

Pregnane X receptor (PXR) deficiency promotes hepatocarcinogenesis via induction of Akr1c18 expression and prostaglandin F2alpha (PGF2alpha) levels.
Title: Pregnane X receptor (PXR) deficiency promotes hepatocarcinogenesis via induction of Akr1c18 expression and prostaglandin F(2α) (PGF(2α)) levels.
Pregnane X receptor knockout mitigates weight gain and hepatic metabolic dysregulation in female C57BL/6 J mice on a long-term high-fat diet.
Title: Pregnane X receptor knockout mitigates weight gain and hepatic metabolic dysregulation in female C57BL/6 J mice on a long-term high-fat diet.
S-nitrosylation attenuates pregnane X receptor hyperactivity and acetaminophen-induced liver injury.
Title: S-nitrosylation attenuates pregnane X receptor hyperactivity and acetaminophen-induced liver injury.
Pregnane X receptor (PXR) deficiency protects against spinal cord injury by activating NRF2/HO-1 pathway.
Title: Pregnane X receptor (PXR) deficiency protects against spinal cord injury by activating NRF2/HO-1 pathway.
Pregnane X receptor activation alleviates renal fibrosis in mice via interacting with p53 and inhibiting the Wnt7a/beta-catenin signaling.
Title: Pregnane X receptor activation alleviates renal fibrosis in mice via interacting with p53 and inhibiting the Wnt7a/β-catenin signaling.
Pregnane X receptor activation remodels glucose metabolism to promote NAFLD development in obese mice.
Title: Pregnane X receptor activation remodels glucose metabolism to promote NAFLD development in obese mice.
Oral arsenic administration to humanizedUDP-glucuronosyltransferase1 neonatal mice induces UGT1A1 through a dependence on Nrf2 and PXR.
Title: Oral arsenic administration to humanizedUDP-glucuronosyltransferase1 neonatal mice induces UGT1A1 through a dependence on Nrf2 and PXR.
The Pregnane X Receptor and Indole-3-Propionic Acid Shape the Intestinal Mesenchyme to Restrain Inflammation and Fibrosis.
Title: The Pregnane X Receptor and Indole-3-Propionic Acid Shape the Intestinal Mesenchyme to Restrain Inflammation and Fibrosis.
PXR triggers YAP-TEAD binding and Sirt2-driven YAP deacetylation and polyubiquitination to promote liver enlargement and regeneration in mice.
Title: PXR triggers YAP-TEAD binding and Sirt2-driven YAP deacetylation and polyubiquitination to promote liver enlargement and regeneration in mice.
Pregnane X receptor promotes liver enlargement in mice through the spatial induction of hepatocyte hypertrophy and proliferation.
Title: Pregnane X receptor promotes liver enlargement in mice through the spatial induction of hepatocyte hypertrophy and proliferation.

Submit: New GeneRIF Correction See all GeneRIFs (109)

Variation

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Alleles

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

Endonuclease-mediated (7) 1 citation
Targeted (10) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AF031814 (e-PCR)
- UniSTS:160570

NoName (e-PCR)
- UniSTS:494959

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	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 RNA polymerase II transcription regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor activity	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables nuclear receptor binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
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 transcription by RNA polymerase II	NAS Non-traceable Author Statement more info	PubMed
involved_in xenobiotic catabolic process	ISO Inferred from Sequence Orthology more info
involved_in xenobiotic catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in xenobiotic metabolic process	ISO Inferred from Sequence Orthology more info
involved_in xenobiotic metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in xenobiotic transport	ISO Inferred from Sequence Orthology more info
involved_in xenobiotic transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in intermediate filament cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in intermediate filament cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	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
part_of transcription regulator complex	EXP Inferred from Experiment more info	PubMed
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear receptor subfamily 1 group I member 2

Names: Pregnane X receptor; orphan nuclear receptor PXR

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_001098404.1 → NP_001091874.1 nuclear receptor subfamily 1 group I member 2 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate, in-frame, downstream acceptor splice site at one of the coding exons compared to transcript variant 1, resulting in an isoform (2, also known as PXR.2) that is missing a 41 aa segment compared to isoform 1.

Source sequence(s)

AF031814, AI595758, AI746915, AK018630, CK383398

UniProtKB/Swiss-Prot

O54915

Conserved Domains (2) summary

cd06934
Location:140 → 384

NR_LBD_PXR_like; The ligand binding domain of xenobiotic receptors:pregnane X receptor and constitutive androstane receptor

cl02596
Location:37 → 124

NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
NM_010936.3 → NP_035066.1 nuclear receptor subfamily 1 group I member 2 isoform 1

See identical proteins and their annotated locations for NP_035066.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1, also known as PXR.1).

Source sequence(s)

AI595758, AI746915, AK018630, CK383398

Consensus CDS

CCDS28164.1

UniProtKB/Swiss-Prot

O54915

UniProtKB/TrEMBL

Q0P525

Related

ENSMUSP00000023504.5, ENSMUST00000023504.5

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 425

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

RNA

NR_189595.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC154284, AC154809

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

NC_000082.7 Reference GRCm39 C57BL/6J

Range

38068711..38115211 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006521848.4 → XP_006521911.1 nuclear receptor subfamily 1 group I member 2 isoform X1

See identical proteins and their annotated locations for XP_006521911.1

UniProtKB/Swiss-Prot

O54915

UniProtKB/TrEMBL

Q0P525

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 425

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_006521846.4 → XP_006521909.1 nuclear receptor subfamily 1 group I member 2 isoform X1

See identical proteins and their annotated locations for XP_006521909.1

UniProtKB/Swiss-Prot

O54915

UniProtKB/TrEMBL

Q0P525

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 425

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_011245839.3 → XP_011244141.1 nuclear receptor subfamily 1 group I member 2 isoform X2

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 336

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_011245840.3 → XP_011244142.1 nuclear receptor subfamily 1 group I member 2 isoform X4

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 265

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
XM_006521847.4 → XP_006521910.1 nuclear receptor subfamily 1 group I member 2 isoform X3

Conserved Domains (2) summary

cl02596
Location:37 → 124

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

cl11397
Location:140 → 307

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators