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    Foxn4 forkhead box N4 [ Mus musculus (house mouse) ]

    Gene ID: 116810, updated on 24-Dec-2024

    Summary

    Official Symbol
    Foxn4provided by MGI
    Official Full Name
    forkhead box N4provided by MGI
    Primary source
    MGI:MGI:2151057
    See related
    Ensembl:ENSMUSG00000042002 AllianceGenome:MGI:2151057
    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
    Summary
    Enables DNA-binding transcription factor activity, RNA polymerase II-specific; chromatin binding activity; and cis-regulatory region sequence-specific DNA binding activity. Involved in neural retina development; positive regulation of transcription by RNA polymerase II; and ventral spinal cord interneuron fate commitment. Acts upstream of or within neuron fate commitment. Located in nucleus. Is expressed in several structures, including alimentary system; central nervous system; eye; metanephros; and respiratory system. Orthologous to human FOXN4 (forkhead box N4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in CNS E11.5 (RPKM 1.7), ovary adult (RPKM 0.4) and 4 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Foxn4 in Genome Data Viewer
    Location:
    5 F; 5 55.99 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (114392225..114412486, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (114254164..114274418, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene alkB homolog 2, alpha-ketoglutarate-dependent dioxygenase Neighboring gene uracil DNA glycosylase Neighboring gene acetyl-Coenzyme A carboxylase beta Neighboring gene STARR-seq mESC enhancer starr_14069 Neighboring gene STARR-seq mESC enhancer starr_14070 Neighboring gene VISTA enhancer mm1522 Neighboring gene STARR-positive B cell enhancer mm9_chr5:114762243-114762544 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:114765155-114765411 Neighboring gene myosin 1H Neighboring gene potassium channel tetramerisation domain containing 10 Neighboring gene ubiquitin protein ligase E3B Neighboring gene microRNA 7027

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    General gene information

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    is_active_in nucleus  
    located_in nucleus PubMed 

    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_148935.2NP_683737.2  forkhead box protein N4

      See identical proteins and their annotated locations for NP_683737.2

      Status: VALIDATED

      Source sequence(s)
      AC127255, AY039039
      Consensus CDS
      CCDS19562.1
      UniProtKB/Swiss-Prot
      Q0VGP0, Q8K3Q3, Q920C0
      UniProtKB/TrEMBL
      Q3V2Y1
      Related
      ENSMUSP00000047951.6, ENSMUST00000044790.12
      Conserved Domains (1) summary
      pfam00250
      Location:196283
      Forkhead; Forkhead domain

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      114392225..114412486 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006530121.5XP_006530184.1  forkhead box protein N4 isoform X1

      See identical proteins and their annotated locations for XP_006530184.1

      UniProtKB/Swiss-Prot
      Q0VGP0, Q8K3Q3, Q920C0
      UniProtKB/TrEMBL
      Q3V2Y1
      Conserved Domains (1) summary
      pfam00250
      Location:196283
      Forkhead; Forkhead domain
    2. XM_006530122.1XP_006530185.1  forkhead box protein N4 isoform X2

      See identical proteins and their annotated locations for XP_006530185.1

      UniProtKB/TrEMBL
      Q3V2Y1
      Conserved Domains (2) summary
      pfam00250
      Location:137224
      Forkhead; Forkhead domain
      pfam14650
      Location:270342
      FAM75; FAM75 family
    3. XM_011248160.3XP_011246462.1  forkhead box protein N4 isoform X2

      See identical proteins and their annotated locations for XP_011246462.1

      UniProtKB/TrEMBL
      Q3V2Y1
      Conserved Domains (2) summary
      pfam00250
      Location:137224
      Forkhead; Forkhead domain
      pfam14650
      Location:270342
      FAM75; FAM75 family
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