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

    Gene ID: 15218, updated on 27-Nov-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. Spontaneous degeneration of testicular germ cells in congenitally athymic nude mice of four strains: a light microscopical observation. Itoh M, et al. J Androl, 1997 Nov-Dec. PMID 9432140
    2. ATG4B inhibitors with a benzotropolone core structure block autophagy and augment efficiency of chemotherapy in mice. Kurdi A, et al. Biochem Pharmacol, 2017 Aug 15. PMID 28642033
    3. Experimental Yersinia enterocolitica infection in euthymic and T-cell-deficient athymic nude C57BL/6 mice: comparison of time course, histomorphology, and immune response. Autenrieth IB, et al. Infect Immun, 1993 Jun. PMID 8500896, Free PMC Article
    4. Two genetically separable steps in the differentiation of thymic epithelium. Nehls M, et al. Science, 1996 May 10. PMID 8629026
    5. The nu gene acts cell-autonomously and is required for differentiation of thymic epithelial progenitors. Blackburn CC, et al. Proc Natl Acad Sci U S A, 1996 Jun 11. PMID 8650163, Free PMC Article

    See all (765) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. [Epidermal factor Foxn1 as a regulator of antioxidant defense in the skin].
      Title: [Epidermal factor Foxn1 as a regulator of antioxidant defense in the skin].
    2. Administration of recombinant FOXN1 protein attenuates Alzheimer's pathology in mice.
      Title: Administration of recombinant FOXN1 protein attenuates Alzheimer's pathology in mice.
    3. 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.
    4. 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.
    5. 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.
    6. 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.
    7. 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.
    8. 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.
    9. 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.
    10. 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.
    Submit: New GeneRIF Correction See all GeneRIFs (68)

    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 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, 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 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 nail development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of epithelial cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 
    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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    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_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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