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NR1D1 nuclear receptor subfamily 1 group D member 1 [ Homo sapiens (human) ]

Gene ID: 9572, updated on 23-Nov-2023

Summary

Official Symbol
NR1D1provided by HGNC
Official Full Name
nuclear receptor subfamily 1 group D member 1provided by HGNC
Primary source
HGNC:HGNC:7962
See related
Ensembl:ENSG00000126368 MIM:602408; AllianceGenome:HGNC:7962
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
EAR1; hRev; THRA1; THRAL; ear-1; REVERBA; REVERBalpha
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, Jan 2013]
Expression
Ubiquitous expression in ovary (RPKM 21.5), brain (RPKM 21.4) and 24 other tissues See more
Orthologs
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Genomic context

See NR1D1 in Genome Data Viewer
Location:
17q21.1
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (40092793..40100589, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (40956678..40964476, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (38249046..38256842, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38182900-38183810 Neighboring gene mediator complex subunit 24 Neighboring gene small nucleolar RNA, C/D box 124 Neighboring gene microRNA 6884 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38191855-38192722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12122 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38216829-38217416 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38217417-38218004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38218005-38218590 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8471 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8472 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8473 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38227151-38227756 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38231037-38231892 Neighboring gene thyroid hormone receptor alpha Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12123 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38246843-38247468 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38247469-38248095 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12124 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12126 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12125 Neighboring gene Sharpr-MPRA regulatory region 6187 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr17:38254986-38256185 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12128 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38259215-38260094 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38262999-38263628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38264065-38264599 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:38264600-38265133 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38266388-38267328 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12130 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12129 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38270115-38270902 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:38270903-38271688 Neighboring gene uncharacterized LOC124904001 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8477 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8478 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8479 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8480 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:38279065-38279703 Neighboring gene MSL complex subunit 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
PubMed 
enables E-box binding 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 cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables heme binding IDA
Inferred from Direct Assay
more info
PubMed 
enables nuclear receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables nuclear steroid receptor activity TAS
Traceable Author Statement
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription corepressor binding IDA
Inferred from Direct Assay
more info
PubMed 
enables transcription corepressor binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cellular response to lipopolysaccharide IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to tumor necrosis factor ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT involved_in cholesterol homeostasis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cholesterol homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in circadian regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in circadian temperature homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in glycogen biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in hormone-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in intracellular glucose homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intracellular receptor signaling pathway IEA
Inferred from Electronic Annotation
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 astrocyte activation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of canonical NF-kappaB signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of cold-induced thermogenesis ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
involved_in negative regulation of inflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of microglial cell activation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of neuroinflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of toll-like receptor 4 signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of bile acid biosynthetic process ISS
Inferred from Sequence or Structural Similarity
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 ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein destabilization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of circadian rhythm ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of circadian sleep/wake cycle ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of fat cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of insulin secretion involved in cellular response to glucose stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of lipid metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of type B pancreatic cell proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in response to leptin IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to leptin ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in steroid hormone mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of chromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of chromatin ISA
Inferred from Sequence Alignment
more info
 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in dendritic spine ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in nuclear body IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
nuclear receptor subfamily 1 group D member 1
Names
Rev-ErbAalpha
V-erbA-related protein 1
nuclear receptor Rev-ErbA-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.

Genomic

  1. NG_033084.1 RefSeqGene

    Range
    5137..12933
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_021724.5NP_068370.1  nuclear receptor subfamily 1 group D member 1

    See identical proteins and their annotated locations for NP_068370.1

    Status: REVIEWED

    Source sequence(s)
    BC056148
    Consensus CDS
    CCDS11361.1
    UniProtKB/Swiss-Prot
    P20393, Q0P5Z4, Q15304
    UniProtKB/TrEMBL
    F1D8S3
    Related
    ENSP00000246672.3, ENST00000246672.4
    Conserved Domains (2) summary
    cd07166
    Location:127215
    NR_DBD_REV_ERB; DNA-binding domain of REV-ERB receptor-like is composed of two C4-type zinc fingers
    cl11397
    Location:418611
    NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    40092793..40100589 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    40956678..40964476 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)