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Foxn1 forkhead box N1 [ Mus musculus (house mouse) ]

Gene ID: 15218, updated on 1-Apr-2024

Summary

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Official Symbol
Foxn1provided by MGI
Official Full Name
forkhead box N1provided by MGI
Primary source
MGI:MGI:102949
See related
Ensembl:ENSMUSG00000002057 AllianceGenome:MGI:102949
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
nu; Whn; nude; Fkh19; Hfh11; HFH-11; D11Bhm185e
Summary
The protein encoded by this gene is part of the forkhead family or "winged-helix" transcription factors that are important in developmental processes, immune system regulation, metabolism, cancer and aging. This gene family has over 100 members, subdivided into classes (A-Q) based on phylogeny. The encoded protein is proposed to regulate development of the thymus and differentiation of keratinocytes. Mutations in this gene cause severe primary T-cell immunodeficiency and congenital alopecia. In mouse mutations of this gene underlie the phenotype of the nude mouse, which has been widely used as a model system in oncology, immunology, dermatology, and transplantation studies. In humans mutations in this gene have been correlated with T-cell immunodeficiency, the skin disorder congenital alopecia, and nail dystrophy. Alternative splicing results in multiple transcript variants that encode different protein isoforms. [provided by RefSeq, Apr 2013]
Expression
Biased expression in thymus adult (RPKM 7.5), stomach adult (RPKM 0.8) and 1 other tissue See more
Orthologs
human all
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Genomic context

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See Foxn1 in Genome Data Viewer
Location:
11 B5; 11 46.74 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (78248403..78277597, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (78357577..78386783, complement)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E906 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class S Neighboring gene unc-119 lipid binding chaperone Neighboring gene STARR-positive B cell enhancer mm9_chr11:78173491-78173792 Neighboring gene predicted gene, 30367 Neighboring gene solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2, opposite strand Neighboring gene solute carrier family 13 (sodium-dependent dicarboxylate transporter), member 2 Neighboring gene solute carrier family 46, member 1 Neighboring gene sterile alpha and HEAT/Armadillo motif containing 1

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
  • 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. Foxn1 overexpression promotes thymic epithelial progenitor cell proliferation and mTEC maintenance, but does not prevent thymic involution. Li J, et al. Development, 2023 Apr 15. PMID 36975725,
  2. The Transcription Factor FOXN1 Regulates Skin Adipogenesis and Affects Susceptibility to Diet-Induced Obesity. Walendzik K, et al. J Invest Dermatol, 2020 Jun. PMID 31811821
  3. Speckle modulation enables high-resolution wide-field human brain tumor margin detection and in vivo murine neuroimaging. Yecies D, et al. Sci Rep, 2019 Jul 17. PMID 31316099, Free PMC Article
  4. Genetic manipulation of autonomic nerve fiber innervation and activity and its effect on breast cancer progression. Kamiya A, et al. Nat Neurosci, 2019 Aug. PMID 31285612
  5. FoxN1-dependent thymic epithelial cells promote T-cell leukemia development. Ghezzo MN, et al. Carcinogenesis, 2018 Dec 31. PMID 30256907

See all (694) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Administration of recombinant FOXN1 protein attenuates Alzheimer's pathology in mice.
    Title: Administration of recombinant FOXN1 protein attenuates Alzheimer's pathology in mice.
  2. Dermal white adipose tissue development and metabolism: The role of transcription factor Foxn1.
    Title: Dermal white adipose tissue development and metabolism: The role of transcription factor Foxn1.
  3. Foxn1 overexpression promotes thymic epithelial progenitor cell proliferation and mTEC maintenance, but does not prevent thymic involution.
    Title: Foxn1 overexpression promotes thymic epithelial progenitor cell proliferation and mTEC maintenance, but does not prevent thymic involution.
  4. Limits to in vivo fate changes of epithelia in thymus and parathyroid by ectopic expression of transcription factors Gcm2 and Foxn1.
    Title: Limits to in vivo fate changes of epithelia in thymus and parathyroid by ectopic expression of transcription factors Gcm2 and Foxn1.
  5. Protection against autoimmunity is driven by thymic epithelial cell-mediated regulation of Treg development.
    Title: Protection against autoimmunity is driven by thymic epithelial cell-mediated regulation of T(reg) development.
  6. Delayed maturation of thymic epithelium in mice with specific deletion of beta-catenin gene in FoxN1 positive cells.
    Title: Delayed maturation of thymic epithelium in mice with specific deletion of β-catenin gene in FoxN1 positive cells.
  7. P63 targeted deletion under the FOXN1 promoter disrupts pre-and post-natal thymus development, function and maintenance as well as induces severe hair loss.
    Title: P63 targeted deletion under the FOXN1 promoter disrupts pre-and post-natal thymus development, function and maintenance as well as induces severe hair loss.
  8. Dermal White Adipose Tissue (dWAT) Is Regulated by Foxn1 and Hif-1alpha during the Early Phase of Skin Wound Healing.
    Title: Dermal White Adipose Tissue (dWAT) Is Regulated by Foxn1 and Hif-1α during the Early Phase of Skin Wound Healing.
  9. High-Oxygen Submersion Fetal Thymus Organ Cultures Enable FOXN1-Dependent and -Independent Support of T Lymphopoiesis.
    Title: High-Oxygen Submersion Fetal Thymus Organ Cultures Enable FOXN1-Dependent and -Independent Support of T Lymphopoiesis.
  10. Impairment of the Hif-1alpha regulatory pathway in Foxn1-deficient (Foxn1(-/-) ) mice affects the skin wound healing process.
    Title: Impairment of the Hif-1α regulatory pathway in Foxn1-deficient (Foxn1(-/-) ) mice affects the skin wound healing process.
Submit: New GeneRIF Correction See all GeneRIFs (67)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Clone Names

  • MGC124316, MGC124317

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription cis-regulatory region binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in T cell homeostasis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in T cell lineage commitment IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in blood vessel morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within epidermis development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within hair follicle development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in hemopoiesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within keratinocyte differentiation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in keratinocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lymphocyte homeostasis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lymphoid lineage cell migration into thymus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within nail development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of epithelial cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of hair follicle development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of T cell differentiation in thymus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of positive thymic T cell selection IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within thymus development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in thymus development ISO
Inferred from Sequence Orthology
more info
  
involved_in thymus epithelium morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
forkhead box protein N1
Names
HNF-3/forkhead homolog 11
hepatocyte nuclear factor 3 forkhead homolog 11
winged-helix transcription factor nude

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_001277290.1 → NP_001264219.1  forkhead box protein N1 isoform 2

    See identical proteins and their annotated locations for NP_001264219.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame acceptor splice site in the 5' coding region compared to variant 1. It encodes isoform 2 which is shorter compared to isoform 1.
    Source sequence(s)
    AI429806, BC108980, BX521706, CJ056441, W97983
    UniProtKB/TrEMBL
    Q32MU3
    Conserved Domains (1) summary
    pfam00250
    Location:269 → 356
    Forkhead; Forkhead domain

  2. NM_008238.2 → NP_032264.1  forkhead box protein N1 isoform 1

    See identical proteins and their annotated locations for NP_032264.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AI429806, AL591131, BC108981, BX521706, W97983
    Consensus CDS
    CCDS25102.1
    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Related
    ENSMUSP00000103929.2, ENSMUST00000108294.2
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    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_000077.7 Reference GRCm39 C57BL/6J

    Range
    78248403..78277597 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006532266.5 → XP_006532329.1  forkhead box protein N1 isoform X1

    See identical proteins and their annotated locations for XP_006532329.1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  2. XM_017314289.3 → XP_017169778.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  3. XM_017314288.1 → XP_017169777.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  4. XM_017314290.1 → XP_017169779.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  5. XM_006532267.2 → XP_006532330.1  forkhead box protein N1 isoform X2

    See identical proteins and their annotated locations for XP_006532330.1

    UniProtKB/TrEMBL
    Q32MU3
    Conserved Domains (1) summary
    pfam00250
    Location:269 → 356
    Forkhead; Forkhead domain

  6. XM_017314285.1 → XP_017169774.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  7. XM_017314284.2 → XP_017169773.1  forkhead box protein N1 isoform X3

    Conserved Domains (1) summary
    pfam00250
    Location:269 → 356
    Forkhead; Forkhead domain

  8. XM_017314283.2 → XP_017169772.1  forkhead box protein N1 isoform X2

    UniProtKB/TrEMBL
    Q32MU3
    Conserved Domains (1) summary
    pfam00250
    Location:269 → 356
    Forkhead; Forkhead domain

  9. XM_006532264.3 → XP_006532327.2  forkhead box protein N1 isoform X1

    See identical proteins and their annotated locations for XP_006532327.2

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  10. XM_006532268.3 → XP_006532331.2  forkhead box protein N1 isoform X5

    Conserved Domains (1) summary
    pfam00250
    Location:116 → 203
    Forkhead; Forkhead domain

  11. XM_006532265.4 → XP_006532328.1  forkhead box protein N1 isoform X4

    Conserved Domains (1) summary
    pfam00250
    Location:326 → 413
    Forkhead; Forkhead domain

  12. XM_017314286.2 → XP_017169775.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  13. XM_017314292.2 → XP_017169781.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  14. XM_017314291.2 → XP_017169780.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain

  15. XM_017314287.1 → XP_017169776.1  forkhead box protein N1 isoform X1

    UniProtKB/Swiss-Prot
    Q61575
    UniProtKB/TrEMBL
    Q5SYK1
    Conserved Domains (1) summary
    pfam00250
    Location:270 → 357
    Forkhead; Forkhead domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q61575.1 GenPept UniProtKB/Swiss-Prot:Q61575

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