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Foxa2 Gene Detail
Summary
  • Symbol
    Foxa2
  • Name
    forkhead box A2
  • Synonyms
    Hnf-3b, Hnf3b, HNF3-beta, HNF3beta, Tcf-3b, Tcf3b
  • Feature Type
    protein coding gene
  • IDs
    MGI:1347476
    NCBI Gene: 15376
  • Alliance
    gene page
  • Transcription Start Sites
    5 TSS
  • Regulated by
    Rr210, Rr213, Rr212 ... (6 regulatory regions)
Location &
Maps
more
  • Sequence Map
    Chr2:147884797-147888889 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 73.38 cM
  • Mapping Data
    6 experiments
Strain
Comparison
more
  • SNPs within 2kb
    138 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1347476
 protein coding gene Chr2:147884797-147888889 (-)
129S1/SvImJ MGP_129S1SvImJ_G0026605
 protein coding gene Chr2:152358345-152362437 (-)
A/J MGP_AJ_G0026569
 protein coding gene Chr2:146166634-146170727 (-)
AKR/J MGP_AKRJ_G0026543
 protein coding gene Chr2:150400211-150404303 (-)
BALB/cJ MGP_BALBcJ_G0026581
 protein coding gene Chr2:146591503-146595596 (-)
C3H/HeJ MGP_C3HHeJ_G0026324
 protein coding gene Chr2:150888610-150892703 (-)
C57BL/6NJ MGP_C57BL6NJ_G0027026
 protein coding gene Chr2:156809520-156813612 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0024404
 protein coding gene Chr2:140187959-140192069 (-)
CAST/EiJ MGP_CASTEiJ_G0025785
 protein coding gene Chr2:151256698-151260787 (-)
CBA/J MGP_CBAJ_G0026304
 protein coding gene Chr2:162559230-162563323 (-)
DBA/2J MGP_DBA2J_G0026438
 protein coding gene Chr2:145427795-145431885 (-)
FVB/NJ MGP_FVBNJ_G0026402
 protein coding gene Chr2:143935221-143939309 (-)
LP/J MGP_LPJ_G0026542
 protein coding gene Chr2:152487697-152491789 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0026422
 protein coding gene Chr2:166621263-166625452 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0027081
 protein coding gene Chr2:150386235-150390325 (-)
PWK/PhJ MGP_PWKPhJ_G0025521
 protein coding gene Chr2:145119098-145123188 (-)
SPRET/EiJ MGP_SPRETEiJ_G0025322
 protein coding gene Chr2:149370819-149374900 (-)
WSB/EiJ MGP_WSBEiJ_G0025859
 protein coding gene Chr2:151335438-151339525 (-)



Homology
more
  • Human Ortholog
    FOXA2, forkhead box A2
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    FOXA2, forkhead box A2
  • Synonyms
    HNF3B, HNF-3-beta, TCF3B
  • Links
    NCBI Gene ID: 3170
    UniProt: Q9Y261

  • Chr Location
    20p11.21; chr20:22580998-22585490 (-)  GRCh38
Human Diseases
more
  • Diseases
    1 with human FOXA2 associations

Human Disease Mouse Models
      
IDs
Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    115 phenotypes from 9 alleles in 16 genetic backgrounds
    55 phenotypes from multigenic genotypes
    166 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.
Embryos homozygous for targeted null mutations fail to form a distinct node, lack a notochord, and die by embryonic day 10 or 11. Mutants also exhibit defects of somite and neural tube organization, and lack a floor plate and motor neurons.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    122
  • GO References
    42
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
    3408
  • Tissues
    784
  • cDNA Data
    42
  • Literature Summary
    764
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 15376 NCBI Gene Model | MGI Sequence Detail 4093 C57BL/6J ±  kb
    transcript NM_001291067 RefSeq | MGI Sequence Detail 2138 ZRU/MplStud  
    polypeptide P35583 UniProt | EBI | MGI Sequence Detail 459 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 163
      Genomic 9
      cDNA 54
      Primer pair 32
      Other 68

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-10805, MGD-MRK-14750, MGD-MRK-14756, MGD-MRK-16684, MGI:99889
    References
    more
    • Summaries
      All 979
      Developmental Gene Expression 764
      Gene Ontology 42
      Phenotypes 166
    • Earliest
      J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
    • Latest
      J:372755 Yilmaz A, et al., Transgene-free generation of mouse post-gastrulation whole embryo models solely from naive ESCs and iPSCs. Cell Stem Cell. 2025 Oct 2;32(10):1545-1562.e12
    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