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Nr1d1 nuclear receptor subfamily 1, group D, member 1 [ Mus musculus (house mouse) ]

Gene ID: 217166, updated on 14-May-2024

Summary

Official Symbol
Nr1d1provided by MGI
Official Full Name
nuclear receptor subfamily 1, group D, member 1provided by MGI
Primary source
MGI:MGI:2444210
See related
Ensembl:ENSMUSG00000020889 AllianceGenome:MGI:2444210
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
A530070C09Rik
Summary
This gene encodes a transcription factor that is a member of the nuclear receptor subfamily 1. The encoded protein is a ligand-sensitive transcription factor that negatively regulates the expression of core clock proteins. In particular this protein represses the circadian clock transcription factor aryl hydrocarbon receptor nuclear translocator-like protein 1 (Arntl). This protein may also be involved in regulating genes that function in metabolic, inflammatory and cardiovascular processes. [provided by RefSeq, Feb 2014]
Expression
Broad expression in adrenal adult (RPKM 224.5), lung adult (RPKM 118.7) and 21 other tissues See more
Orthologs
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Genomic context

See Nr1d1 in Genome Data Viewer
Location:
11 D; 11 62.66 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (98658758..98666233, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (98767932..98775377, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene mediator complex subunit 24 Neighboring gene predicted gene, 22059 Neighboring gene predicted gene, 31252 Neighboring gene STARR-positive B cell enhancer ABC_E3017 Neighboring gene thyroid hormone receptor alpha Neighboring gene STARR-positive B cell enhancer ABC_E3018 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:98636882-98637065 Neighboring gene predicted gene, 31862 Neighboring gene STARR-positive B cell enhancer ABC_E468 Neighboring gene male specific lethal 1 Neighboring gene predicted gene 12359

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 transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables E-box binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
enables heme 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 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 transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription corepressor 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 cellular response to interleukin-1 IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cellular response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to tumor necrosis factor IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cholesterol homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in circadian regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within circadian rhythm IDA
Inferred from Direct Assay
more info
PubMed 
involved_in circadian rhythm IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in circadian temperature homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in glycogen biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in hormone-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in intracellular glucose homeostasis ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of astrocyte activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of canonical NF-kappaB signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cold-induced thermogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of inflammatory response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of microglial cell activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of neuroinflammatory response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of toll-like receptor 4 signaling pathway 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
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of bile acid biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of circadian rhythm 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 proteasomal protein catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein destabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of circadian sleep/wake cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of fat cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of hepatic stellate cell activation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of insulin secretion involved in cellular response to glucose stimulus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of lipid metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of type B pancreatic cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to leptin IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to leptin IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within rhythmic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
part_of chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in dendritic spine IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
nuclear receptor subfamily 1 group D member 1
Names
EAR-1
REV-ERBalpha
Rev-ErbA-alpha protein
V-erbA-related protein 1
nuclear receptor protein
orphan nuclear receptor
rev-erb alpha
rev-erbA alpha

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_145434.4NP_663409.2  nuclear receptor subfamily 1 group D member 1

    See identical proteins and their annotated locations for NP_663409.2

    Status: VALIDATED

    Source sequence(s)
    AK155597, CD776678
    Consensus CDS
    CCDS25363.1
    UniProtKB/Swiss-Prot
    Q3UJJ1, Q3UV55, Q62171, Q6EEZ6, Q922A5, Q9ESY4
    Related
    ENSMUSP00000069505.7, ENSMUST00000064941.7
    Conserved Domains (2) summary
    cd07166
    Location:128216
    NR_DBD_REV_ERB; DNA-binding domain of REV-ERB receptor-like is composed of two C4-type zinc fingers
    cl11397
    Location:419612
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

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_000077.7 Reference GRCm39 C57BL/6J

    Range
    98658758..98666233 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036156590.1XP_036012483.1  nuclear receptor subfamily 1 group D member 1 isoform X1

    Conserved Domains (2) summary
    cl02596
    Location:49110
    NR_DBD_like; DNA-binding domain of nuclear receptors is composed of two C4-type zinc fingers
    cl11397
    Location:313506
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

RNA

  1. XR_004936927.1 RNA Sequence