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Nr2f1 nuclear receptor subfamily 2, group F, member 1 [ Mus musculus (house mouse) ]

Gene ID: 13865, updated on 2-Nov-2024

Summary

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Official Symbol
Nr2f1provided by MGI
Official Full Name
nuclear receptor subfamily 2, group F, member 1provided by MGI
Primary source
MGI:MGI:1352451
See related
Ensembl:ENSMUSG00000069171 AllianceGenome:MGI:1352451
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
EAR3; EAR-3; SVP44; Erbal3; COUPTFA; COUP-TF1; COUP-TFI; Tcfcoup1
Summary
Enables sequence-specific DNA binding activity. Acts upstream of or within nervous system development and regulation of DNA-templated transcription. Located in nucleus. Is expressed in several structures, including branchial arch; central nervous system; genitourinary system; gut; and sensory organ. Used to study Bosch-Boonstra-Schaaf optic atrophy syndrome. Human ortholog(s) of this gene implicated in Bosch-Boonstra-Schaaf optic atrophy syndrome. Orthologous to human NR2F1 (nuclear receptor subfamily 2 group F member 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in whole brain E14.5 (RPKM 49.7), CNS E14 (RPKM 43.7) and 9 other tissues See more
Orthologs
human all
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Genomic context

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See Nr2f1 in Genome Data Viewer
Location:
13 C1; 13 41.38 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (78337090..78346954, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (78188971..78198873, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene ARB2 cotranscriptional regulator A Neighboring gene STARR-seq mESC enhancer starr_35075 Neighboring gene ATPase, H+ transporting, lysosomal V1 subunit A pseudogene Neighboring gene STARR-seq mESC enhancer starr_35076 Neighboring gene RIKEN cDNA 3110006O06 gene Neighboring gene predicted gene, 38604 Neighboring gene RIKEN cDNA A830082K12 gene Neighboring gene STARR-seq mESC enhancer starr_35077 Neighboring gene STARR-seq mESC enhancer starr_35078 Neighboring gene STARR-seq mESC enhancer starr_35079 Neighboring gene nucleoside diphosphate kinase A pseudogene Neighboring gene predicted gene 3963

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. The nuclear orphan receptor COUP-TFI is important for differentiation of oligodendrocytes. Yamaguchi H, et al. Dev Biol, 2004 Feb 15. PMID 14738874
  2. COUP-TF1 Modulates Thyroid Hormone Action in an Embryonic Stem-Cell Model of Cortical Pyramidal Neuronal Differentiation. Teng X, et al. Thyroid, 2018 May. PMID 29205104, Free PMC Article
  3. Effect of mCOUP-TF1 deficiency on the glossopharyngeal and vagal sensory ganglia. Ichikawa H, et al. Brain Res, 2004 Jul 16. PMID 15213010
  4. Hyperactive and anxiolytic-like behaviors result from loss of COUP-TFI/Nr2f1 in the mouse cortex. Contesse T, et al. Genes Brain Behav, 2019 Sep. PMID 30653836
  5. Area-specific temporal control of corticospinal motor neuron differentiation by COUP-TFI. Tomassy GS, et al. Proc Natl Acad Sci U S A, 2010 Feb 23. PMID 20133588, Free PMC Article

See all (182) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NR2F1 shapes mitochondria in the mouse brain, providing new insights into Bosch-Boonstra-Schaaf optic atrophy syndrome.
    Title: NR2F1 shapes mitochondria in the mouse brain, providing new insights into Bosch-Boonstra-Schaaf optic atrophy syndrome.
  2. Genome-Wide ChIPseq Analysis of AhR, COUP-TF, and HNF4 Enrichment in TCDD-Treated Mouse Liver.
    Title: Genome-Wide ChIPseq Analysis of AhR, COUP-TF, and HNF4 Enrichment in TCDD-Treated Mouse Liver.
  3. COUP-TFI/Nr2f1 Orchestrates Intrinsic Neuronal Activity during Development of the Somatosensory Cortex.
    Title: COUP-TFI/Nr2f1 Orchestrates Intrinsic Neuronal Activity during Development of the Somatosensory Cortex.
  4. Nr2f1 heterozygous knockout mice recapitulate neurological phenotypes of Bosch-Boonstra-Schaaf optic atrophy syndrome and show impaired hippocampal synaptic plasticity.
    Title: Nr2f1 heterozygous knockout mice recapitulate neurological phenotypes of Bosch-Boonstra-Schaaf optic atrophy syndrome and show impaired hippocampal synaptic plasticity.
  5. NR2F1 regulates regional progenitor dynamics in the mouse neocortex and cortical gyrification in BBSOAS patients.
    Title: NR2F1 regulates regional progenitor dynamics in the mouse neocortex and cortical gyrification in BBSOAS patients.
  6. Mouse Nr2f1 haploinsufficiency results in model of Bosch-Boonstra-Schaaf optic atrophy.
    Title: Mouse Nr2f1 haploinsufficiency unveils new pathological mechanisms of a human optic atrophy syndrome.
  7. Loss of Nr2f1 in mouse cortex leads to increased locomotor activity but less anxiety.
    Title: Hyperactive and anxiolytic-like behaviors result from loss of COUP-TFI/Nr2f1 in the mouse cortex.
  8. COUP-TFI as a central regulator of the neuron-astroglia cell fate decision and a key modulator during neuroinflammation in the adult hippocampus.
    Title: Neuron-Astroglia Cell Fate Decision in the Adult Mouse Hippocampal Neurogenic Niche Is Cell-Intrinsically Controlled by COUP-TFI In Vivo.
  9. These data support a translational control of COUP-TFI gradient expression by FGF8 via miR-21 and contribute to our understanding of how regionalized expression is established during neocortical area mapping.
    Title: The microRNA miR-21 Is a Mediator of FGF8 Action on Cortical COUP-TFI Translation.
  10. These results indicate that COUP-TF1 plays an important role in modulating the timing and magnitude of T3-stimulated gene expression required for normal corticogenesis.
    Title: COUP-TF1 Modulates Thyroid Hormone Action in an Embryonic Stem-Cell Model of Cortical Pyramidal Neuronal Differentiation.
Submit: New GeneRIF Correction See all GeneRIFs (38)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (7)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC118474

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
enables nuclear receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables retinoic acid-responsive element binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables sequence-specific DNA binding ISO
Inferred from Sequence Orthology
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
  
Process Evidence Code Pubs
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cerebral cortex regionalization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within forebrain development IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within interneuron migration IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of neuron projection development 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 IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nervous system development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neuron migration IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within positive regulation of miRNA transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of gene expression IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
COUP transcription factor 1
Names
COUP transcription factor I
V-erbA-related protein 3
avian erythroblastic leukemia viral (v-erb-a) oncogene homolog-like 3

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_001347538.2 → NP_001334467.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    Consensus CDS
    CCDS84040.1
    UniProtKB/TrEMBL
    F7CII1
    Related
    ENSMUSP00000122618.3, ENSMUST00000125176.3
    Conserved Domains (1) summary
    cd06948
    Location:34 → 269
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family

  2. NM_001347539.2 → NP_001334468.1  COUP transcription factor 1 isoform c

    Status: VALIDATED

    Source sequence(s)
    CT025642
    Consensus CDS
    CCDS84039.1
    UniProtKB/TrEMBL
    B8JJI9, G3UXI5
    Related
    ENSMUSP00000118161.2, ENSMUST00000150498.8
    Conserved Domains (1) summary
    cd06948
    Location:24 → 259
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family

  3. NM_001403773.1 → NP_001390702.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1

  4. NM_001403775.1 → NP_001390704.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1

  5. NM_001403777.1 → NP_001390706.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1

  6. NM_010151.4 → NP_034281.2  COUP transcription factor 1 isoform a

    See identical proteins and their annotated locations for NP_034281.2

    Status: VALIDATED

    Source sequence(s)
    CT025642
    Consensus CDS
    CCDS26658.1
    UniProtKB/Swiss-Prot
    Q60632, Q61438
    UniProtKB/TrEMBL
    Q32NY6
    Related
    ENSMUSP00000089036.7, ENSMUST00000091458.13
    Conserved Domains (2) summary
    cd06948
    Location:181 → 416
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
    cd06958
    Location:83 → 155
    NR_DBD_COUP_TF; DNA-binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs) is composed of two C4-type zinc fingers

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_000079.7 Reference GRCm39 C57BL/6J

    Range
    78337090..78346954 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006517085.3 → XP_006517148.1  COUP transcription factor 1 isoform X1

    UniProtKB/Swiss-Prot
    Q60632, Q61438
    Conserved Domains (2) summary
    cd06948
    Location:180 → 415
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
    cd06958
    Location:83 → 155
    NR_DBD_COUP_TF; DNA-binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs) is composed of two C4-type zinc fingers
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q60632.2 GenPept UniProtKB/Swiss-Prot:Q60632

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