U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 13865, updated on 24-Sep-2024

Summary

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 RNA metabolic process. Located in nucleus. Is expressed in several structures, including branchial arch; central nervous system; genitourinary system; gut; and sensory organ. 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, Apr 2022]
Expression
Biased expression in whole brain E14.5 (RPKM 49.7), CNS E14 (RPKM 43.7) and 9 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC118474

Gene Ontology Provided by MGI

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

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)

NEW Try the new Transcript table

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_001347538.2NP_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:34269
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
  2. NM_001347539.2NP_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:24259
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
  3. NM_001403773.1NP_001390702.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1
  4. NM_001403775.1NP_001390704.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1
  5. NM_001403777.1NP_001390706.1  COUP transcription factor 1 isoform b

    Status: VALIDATED

    Source sequence(s)
    CT025642
    UniProtKB/TrEMBL
    F7CII1
  6. NM_010151.4NP_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:181416
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
    cd06958
    Location:83155
    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_006517085.3XP_006517148.1  COUP transcription factor 1 isoform X1

    UniProtKB/Swiss-Prot
    Q60632, Q61438
    Conserved Domains (2) summary
    cd06948
    Location:180415
    NR_LBD_COUP-TF; Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family
    cd06958
    Location:83155
    NR_DBD_COUP_TF; DNA-binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs) is composed of two C4-type zinc fingers