Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 9572, updated on 17-Jun-2019

    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
    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

    Genomic context

    See NR1D1 in Genome Data Viewer
    Location:
    17q21.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (40092793..40100589, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (38249037..38256978, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene mediator complex subunit 24 Neighboring gene small nucleolar RNA, C/D box 124 Neighboring gene microRNA 6884 Neighboring gene thyroid hormone receptor alpha Neighboring gene MSL complex subunit 1 Neighboring gene CASC3 exon junction complex subunit Neighboring gene microRNA 6866

    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 FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    • BMAL1:CLOCK,NPAS2 activates circadian gene expression, organism-specific biosystem (from REACTOME)
      BMAL1:CLOCK,NPAS2 activates circadian gene expression, organism-specific biosystemAs inferred from mouse, BMAL1:CLOCK (ARNTL:CLOCK) and BMAL1:NPAS2 (ARNTL:NPAS2) heterodimers bind to sequence elements (E boxes) in the promoters of target genes and enhance transcription (Gekakis et...
    • Circadian Clock, organism-specific biosystem (from REACTOME)
      Circadian Clock, organism-specific biosystemAt the center of the mammalian circadian clock is a negative transcription/translation-based feedback loop: The BMAL1:CLOCK/NPAS2 (ARNTL:CLOCK/NPAS2) heterodimer transactivates CRY and PER genes by b...
    • Circadian rhythm, organism-specific biosystem (from KEGG)
      Circadian rhythm, organism-specific biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
    • Circadian rhythm, conserved biosystem (from KEGG)
      Circadian rhythm, conserved biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
    • Circadian rhythm pathway, organism-specific biosystem (from Pathway Interaction Database)
      Circadian rhythm pathway, organism-specific biosystem
      Circadian rhythm pathway
    • Circadian rythm related genes, organism-specific biosystem (from WikiPathways)
      Circadian rythm related genes, organism-specific biosystemThis is currently not a pathway but a list of circadian rhythm related genes and proteins. The source for this information is the gene ontology. The genes and proteins were filtered for "circadian rh...
    • Fatty acid, triacylglycerol, and ketone body metabolism, organism-specific biosystem (from REACTOME)
      Fatty acid, triacylglycerol, and ketone body metabolism, organism-specific biosystemThe reactions involved in the metabolism of fatty acids and of the triacylglycerols and ketone bodies derived from them form a closely interrelated, coordinately regulated module that plays a central...
    • Gene Expression, organism-specific biosystem (from REACTOME)
      Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
    • Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
      Generic Transcription Pathway, organism-specific biosystemOVERVIEW OF TRANSCRIPTION REGULATION: Detailed studies of gene transcription regulation in a wide variety of eukaryotic systems has revealed the general principles and mechanisms by which cell- or t...
    • Metabolism, organism-specific biosystem (from REACTOME)
      Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
    • Metabolism of lipids and lipoproteins, organism-specific biosystem (from REACTOME)
      Metabolism of lipids and lipoproteins, organism-specific biosystemLipids are hydrophobic but otherwise chemically diverse molecules that play a wide variety of roles in human biology. They include ketone bodies, fatty acids, triacylglycerols, phospholipids and sphi...
    • Mitochondrial biogenesis, organism-specific biosystem (from REACTOME)
      Mitochondrial biogenesis, organism-specific biosystemMitochondrial biogenesis and remodeling occur in response to exercise and redox state (reviewed in Scarpulla et al. 2012, Handy and Loscalzo 2012, Piantadosi and Suliman 2012, Scarpulla 2011, Wenz et...
    • NR1D1 (REV-ERBA) represses gene expression, organism-specific biosystem (from REACTOME)
      NR1D1 (REV-ERBA) represses gene expression, organism-specific biosystemREV-ERBA binds DNA elements very similar to those bound by the transcription activator RORA. RORAREV-ERBA bound to DNA and heme recruits the corepressors NCoR and HDAC3 to repress transcription. Thu...
    • Nuclear Receptor transcription pathway, organism-specific biosystem (from REACTOME)
      Nuclear Receptor transcription pathway, organism-specific biosystemA classic example of bifunctional transcription factors is the family of Nuclear Receptor (NR) proteins. These are DNA-binding transcription factors that bind certain hormones, vitamins, and other s...
    • Organelle biogenesis and maintenance, organism-specific biosystem (from REACTOME)
      Organelle biogenesis and maintenance, organism-specific biosystemThis module describes the biogenesis of organelles. Organelles are subcellular structures of distinctive morphology and function. The organelles of human cells include: mitochondria, endoplasmic reti...
    • PPARA activates gene expression, organism-specific biosystem (from REACTOME)
      PPARA activates gene expression, organism-specific biosystemThe set of genes regulated by PPAR-alpha is not fully known in humans, however many examples have been found in mice. Genes directly activated by PPAR-alpha contain peroxisome proliferator receptor e...
    • RORA activates gene expression, organism-specific biosystem (from REACTOME)
      RORA activates gene expression, organism-specific biosystemAs inferred from mouse, RORA binds ROR elements (ROREs) in DNA and recruits the coactivators PPARGC1A (PGC-1alpha) and p300 (EP300, a histone acetylase) to activate transcription.
    • Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha), organism-specific biosystem (from REACTOME)
      Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha), organism-specific biosystemPeroxisome proliferator-activated receptor alpha (PPAR-alpha) is the major regulator of fatty acid oxidation in the liver. PPARalpha is also the target of fibrate drugs used to treat abnormal plasma ...
    • Transcriptional activation of mitochondrial biogenesis, organism-specific biosystem (from REACTOME)
      Transcriptional activation of mitochondrial biogenesis, organism-specific biosystemPhosphorylated PPARGC1A (PGC-1alpha) does not bind DNA directly but instead interacts with other transcription factors, notably NRF1 and NRF2 (via HCF1). NRF1 and NRF2 together with PPARGC1A activate...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    DNA-binding transcription factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
     
    DNA-binding transcription factor activity, RNA polymerase II-specific ISM
    Inferred from Sequence Model
    more info
    PubMed 
    DNA-binding transcription factor activity, RNA polymerase II-specific NAS
    Non-traceable Author Statement
    more info
    PubMed 
    DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    PubMed 
    E-box binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA polymerase II proximal promoter sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    RNA polymerase II proximal promoter sequence-specific DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    RNA polymerase II regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    heme binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear receptor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    nuclear receptor transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    signaling receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    steroid hormone receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    transcription corepressor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    transcription corepressor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription corepressor binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transcription regulatory region DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cellular response to interleukin-1 ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cellular response to lipopolysaccharide IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular response to tumor necrosis factor ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    NOT cholesterol homeostasis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cholesterol homeostasis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    circadian regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    circadian rhythm TAS
    Traceable Author Statement
    more info
     
    circadian temperature homeostasis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    glycogen biosynthetic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    hormone-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    intracellular receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    multicellular organism development IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    negative regulation of I-kappaB kinase/NF-kappaB signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of astrocyte activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of cold-induced thermogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    negative regulation of inflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of microglial cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of neuroinflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of receptor biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of toll-like receptor 4 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of transcription, DNA-templated IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of bile acid biosynthetic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription, DNA-templated ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    proteasomal protein catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein destabilization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of circadian rhythm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    regulation of circadian rhythm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of circadian sleep/wake cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of fat cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of gluconeogenesis by regulation of transcription from RNA polymerase II promoter IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of insulin secretion involved in cellular response to glucose stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of lipid metabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of type B pancreatic cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to leptin IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    response to leptin ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to lipid IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    steroid hormone mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    transcription initiation from RNA polymerase II promoter TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    RNA polymerase II transcription factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dendrite ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dendritic spine ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    nuclear body IDA
    Inferred from Direct Assay
    more info
     
    nuclear chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    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)

    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
      5001..12942
      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
      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: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

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