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Foxn1 Gene Detail
Summary
  • Symbol
    Foxn1
  • Name
    forkhead box N1
  • Synonyms
    D11Bhm185e, Hfh11, whn
  • Feature Type
    protein coding gene
  • IDs
    MGI:102949
    NCBI Gene: 15218
  • Alliance
    gene page
  • Transcription Start Sites
    4 TSS
  • Regulated by
    Rr108, Rr106, Rr109 ... (5 regulatory regions)
Location &
Maps
more
  • Sequence Map
    Chr11:78248403-78277384 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 11, 46.74 cM
  • Mapping Data
    23 experiments
Strain
Comparison
more
  • SNPs within 2kb
    747 from dbSNP Build 142
  • Strain Annotations
    18
  • PCR
    3
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_102949
 protein coding gene Chr11:78248403-78277597 (-)
129S1/SvImJ MGP_129S1SvImJ_G0018778
 protein coding gene Chr11:79360724-79391427 (-)
A/J MGP_AJ_G0018744
 protein coding gene Chr11:76320833-76354388 (-)
AKR/J MGP_AKRJ_G0018714
 protein coding gene Chr11:78626394-78656772 (-)
BALB/cJ MGP_BALBcJ_G0018718
 protein coding gene Chr11:76730440-76759728 (-)
C3H/HeJ MGP_C3HHeJ_G0018531
 protein coding gene Chr11:78675517-78705409 (-)
C57BL/6NJ MGP_C57BL6NJ_G0019169
 protein coding gene Chr11:81830796-81859749 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0016804
 protein coding gene Chr11:73298666-73327563 (-)
CAST/EiJ MGP_CASTEiJ_G0018085
 protein coding gene Chr11:79124245-79155037 (-)
CBA/J MGP_CBAJ_G0018501
 protein coding gene Chr11:85415323-85429727 (-)
DBA/2J MGP_DBA2J_G0018610
 protein coding gene Chr11:75901481-75930507 (-)
FVB/NJ MGP_FVBNJ_G0018600
 protein coding gene Chr11:75487454-75517212 (-)
LP/J MGP_LPJ_G0018681
 protein coding gene Chr11:79889198-79918052 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0018626
 protein coding gene Chr11:85813074-85842082 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0019209
 protein coding gene Chr11:78875476-78904492 (-)
PWK/PhJ MGP_PWKPhJ_G0017856
 protein coding gene Chr11:76694030-76723688 (-)
SPRET/EiJ MGP_SPRETEiJ_G0017647
 protein coding gene Chr11:78486459-78515292 (-)
WSB/EiJ MGP_WSBEiJ_G0018138
 protein coding gene Chr11:78701741-78733368 (-)



Homology
more
  • Human Ortholog
    FOXN1, forkhead box N1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    FOXN1, forkhead box N1
  • Synonyms
    FKHL20, RONU, TIDAND, TLIND, WHN
  • Links
    NCBI Gene ID: 8456
    UniProt: O15353

  • Chr Location
    17q11.2; chr17:28506243-28538900 (+)  GRCh38
Human Diseases
more
  • Diseases
    2 with Foxn1 mouse models; 4 with human FOXN1 associations

Human Disease Mouse Models
      
IDs
 View 4 models
      
IDs
 View 1 model
      
IDs
IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    4 with disease annotations
  • References
    5 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    160 phenotypes from 22 alleles in 36 genetic backgrounds
    49 phenotypes from multigenic genotypes
    6 images
    674 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Homozygotes for different mutations have in genetically determined absence or loss of hair and failed hair keratinization, premature lethality (differing by genetic background) and absence of thymus, resulting in multiple immune abnormalities. Heterozygotes have enlarged thymi.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    38
  • GO References
    15
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    981
  • Tissues
    108
  • cDNA Data
    16
  • Literature Summary
    74
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000002057 Ensembl Gene Model | MGI Sequence Detail 28982 C57BL/6J ±  kb
    transcript ENSMUST00000108294 Ensembl | MGI Sequence Detail 3214 Not Applicable  
    polypeptide ENSMUSP00000103929 Ensembl | MGI Sequence Detail 648 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 58
      Genomic 19
      cDNA 16
      Primer pair 13
      Other 10

      Microarray probesets 5
    Other
    Accession IDs
    less
    MGD-MRK-12946, MGD-MRK-23783, MGD-MRK-35270, MGI:106810
    References
    more
    • Summaries
      All 839
      Developmental Gene Expression 74
      Diseases 5
      Gene Ontology 15
      Phenotypes 674
    • Earliest
      J:2484 Truslove GM, Genetical studies on the skeleton of the mouse. V. 'Interfrontal' and 'parted frontals'. J Genet. 1952;51(1):115-122
    • Latest
      J:373962 Hong D, et al., Loss of NOTCH2 creates a TRIM28-dependent vulnerability in small cell lung cancer. Dev Cell. 2025 Aug 25;
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/30/2025
    MGI 6.24     		The Jackson Laboratory