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

Gene ID: 18171, updated on 27-Feb-2024

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 factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and nuclear receptor binding activity. Acts upstream of or within positive regulation of gene expression. Predicted to be located in intermediate filament cytoskeleton and nuclear body. Is expressed in several structures, including branchial arch; ear; genitourinary system; heart; and nervous system. Orthologous to human NR1I2 (nuclear receptor subfamily 1 group I member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in duodenum adult (RPKM 31.9), large intestine adult (RPKM 23.5) and 8 other tissues See more
Orthologs
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Genomic context

See Nr1i2 in Genome Data Viewer
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_000082.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr16:38088912-38089213 Neighboring gene cDNA sequence BC031361 Neighboring gene glycogen synthase kinase 3 beta Neighboring gene STARR-seq mESC enhancer starr_40810 Neighboring gene predicted gene, 25617 Neighboring gene STARR-seq mESC enhancer starr_40811 Neighboring gene STARR-seq mESC enhancer starr_40812 Neighboring gene cilia and flagella associated protein 91 Neighboring gene STARR-positive B cell enhancer ABC_E9163 Neighboring gene cytochrome c oxidase assembly protein 17, copper chaperone

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 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 DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
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 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 ISO
Inferred from Sequence Orthology
more info
 
enables nuclear 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 IEA
Inferred from Electronic Annotation
more info
 
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
 
Component Evidence Code Pubs
located_in intermediate filament cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
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

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)

  1. NM_001098404.1NP_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:140384
    NR_LBD_PXR_like; The ligand binding domain of xenobiotic receptors:pregnane X receptor and constitutive androstane receptor
    cl02596
    Location:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
  2. NM_010936.3NP_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:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140425
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

RNA

  1. 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

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    38068711..38115211 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521848.4XP_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:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140425
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
  2. XM_006521846.4XP_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:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140425
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
  3. XM_011245839.3XP_011244141.1  nuclear receptor subfamily 1 group I member 2 isoform X2

    Conserved Domains (2) summary
    cl02596
    Location:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140336
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
  4. XM_011245840.3XP_011244142.1  nuclear receptor subfamily 1 group I member 2 isoform X4

    Conserved Domains (2) summary
    cl02596
    Location:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140265
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
  5. XM_006521847.4XP_006521910.1  nuclear receptor subfamily 1 group I member 2 isoform X3

    Conserved Domains (2) summary
    cl02596
    Location:37124
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:140307
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators