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

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: human all
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Genomic context

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_000077.7 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?

Role of the circadian nuclear receptor REV-ERBalpha in dorsal raphe serotonin synthesis in mood regulation.
Title: Role of the circadian nuclear receptor REV-ERBα in dorsal raphe serotonin synthesis in mood regulation.
Nuclear receptor Rev-erbalpha role in fine-tuning erythropoietin gene expression.
Title: Nuclear receptor Rev-erbα role in fine-tuning erythropoietin gene expression.
Rev-erbalpha attenuates diabetic myocardial injury through regulation of ferroptosis.
Title: Rev-erbα attenuates diabetic myocardial injury through regulation of ferroptosis.
Microglia depletion ameliorates neuroinflammation, anxiety-like behavior, and cognitive deficits in a sex-specific manner in Rev-erbalpha knockout mice.
Title: Microglia depletion ameliorates neuroinflammation, anxiety-like behavior, and cognitive deficits in a sex-specific manner in Rev-erbα knockout mice.
Uncovering the Novel Role of NR1D1 in Regulating BNIP3-Mediated Mitophagy in Ulcerative Colitis.
Title: Uncovering the Novel Role of NR1D1 in Regulating BNIP3-Mediated Mitophagy in Ulcerative Colitis.
NR1D1 Stimulates Antitumor Immune Responses in Breast Cancer by Activating cGAS-STING Signaling.
Title: NR1D1 Stimulates Antitumor Immune Responses in Breast Cancer by Activating cGAS-STING Signaling.
Impact of the circadian nuclear receptor REV-ERBalpha in dorsal raphe 5-HT neurons on social interaction behavior, especially social preference.
Title: Impact of the circadian nuclear receptor REV-ERBα in dorsal raphe 5-HT neurons on social interaction behavior, especially social preference.
Microglial REV-ERBalpha regulates inflammation and lipid droplet formation to drive tauopathy in male mice.
Title: Microglial REV-ERBα regulates inflammation and lipid droplet formation to drive tauopathy in male mice.
Inhibition of mPGES-2 ameliorates NASH by activating NR1D1 via heme.
Title: Inhibition of mPGES-2 ameliorates NASH by activating NR1D1 via heme.
Nuclear receptor subfamily 1 group D member 1 in the pathology of obesity-induced osteoarthritis progression.
Title: Nuclear receptor subfamily 1 group D member 1 in the pathology of obesity-induced osteoarthritis progression.

Submit: New GeneRIF Correction See all GeneRIFs (120)

Variation

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Alleles

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

Endonuclease-mediated (9) 1 citation
Targeted (9) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NR1D1_2626 (e-PCR)
- UniSTS:280871

AW259572 (e-PCR)
- UniSTS:180310

RH125185 (e-PCR)
- UniSTS:162007

MARC_5497-5498:996690469:1 (e-PCR)
- UniSTS:269530

THRA_2263 (e-PCR)
- UniSTS:281056

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	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation more info
enables heme binding	ISO Inferred from Sequence Orthology 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 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 transcription corepressor binding	ISS Inferred from Sequence or Structural Similarity 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 cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cellular response to interleukin-1	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
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 intracellular glucose homeostasis	ISS Inferred from Sequence or Structural Similarity 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	IEA Inferred from Electronic Annotation more info
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

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

General protein information

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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)

NM_145434.4 → NP_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:128 → 216

NR_DBD_REV_ERB; DNA-binding domain of REV-ERB receptor-like is composed of two C4-type zinc fingers

cl11397
Location:419 → 612

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

NC_000077.7 Reference GRCm39 C57BL/6J

Range

98658758..98666233 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (2) summary

cl02596
Location:49 → 110

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

cl11397
Location:313 → 506

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