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Hif3a Gene Detail
Summary
  • Symbol
    Hif3a
  • Name
    hypoxia inducible factor 3, alpha subunit
  • Synonyms
    bHLHe17, MOP7, Nepas
  • Feature Type
    protein coding gene
  • IDs
    MGI:1859778
    NCBI Gene: 53417
  • Alliance
    genome feature page
  • Transcription Start Sites
    8 TSS
Location &
Maps
more
  • Sequence Map
    Chr7:16765432-16796352 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 7, 9.15 cM, cytoband A2
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    926 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1859778
 protein coding gene Chr7:16764918-16796352 (-)
129S1/SvImJ ENSMUSG00200038759
 protein coding gene Chr7:10143371-10173941 (-)
A/J ENSMUSG00195051420
 protein coding gene Chr7:10608054-10638743 (-)
AKR/J ENSMUSG00220025330
 protein coding gene Chr7:8900778-8931695 (-)
BALB/cJ ENSMUSG00180050158
 protein coding gene Chr7:10523848-10554521 (-)
C3H/HeJ ENSMUSG00175044369
 protein coding gene Chr7:11008150-11038715 (-)
C57BL/6NJ ENSMUSG00215052669
 protein coding gene Chr7:10264203-10295133 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0029252
 protein coding gene Chr7:16063016-16093267 (-)
CAST/EiJ ENSTCUG00005052434
 protein coding gene Chr7:11013518-11044105 (-)
CBA/J ENSMUSG00210051390
 protein coding gene Chr7:10235161-10265719 (-)
DBA/2J ENSMUSG00185051919
 protein coding gene Chr7:13749875-13780768 (-)
FVB/NJ ENSMUSG00205049830
 protein coding gene Chr7:10634737-10665631 (-)
JF1/MsJ ENSUMUG00000015815
 protein coding gene Chr7:17035793-17066145 (-)
LP/J ENSMUSG00230041848
 protein coding gene Chr7:17967719-17998294 (-)
NOD/ShiLtJ ENSMUSG00190036851
 protein coding gene Chr7:7069609-7100733 (-)
NZO/HlLtJ ENSMUSG00225052872
 protein coding gene Chr7:15203940-15234856 (-)
PWK/PhJ ENSLUMG00010039952
 protein coding gene Chr7:13321737-13352315 (-)
SPRET/EiJ ENSMSPG00010045626
 protein coding gene Chr7:9790044-9815834 (-)
WSB/EiJ ENSIUOG00005049704
 protein coding gene Chr7:15437463-15467997 (+)



Homology
more
  • Human Ortholog
    HIF3A, hypoxia inducible factor 3 subunit alpha
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    HIF3A, hypoxia inducible factor 3 subunit alpha
  • Synonyms
    bHLHe17, HIF-3A, HIF3-alpha-1, IPAS, MOP7, PASD7
  • Links
    NCBI Gene ID: 64344
    UniProt: Q9Y2N7

  • Chr Location
    19q13.32; chr19:46297042-46343433 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    10 phenotypes from 1 allele in 1 genetic background
    7 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.
Mice homozygous for a knock-out allele display impaired lung remodeling resulting in hypertrophy of the heart right ventricle and pulmonary hyperplasia.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    51
  • GO References
    11
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
    703
  • Tissues
    76
  • cDNA Data
    30
  • Literature Summary
    18
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000004328 Ensembl Gene Model | MGI Sequence Detail 30921 C57BL/6J ±  kb
    transcript ENSMUST00000108492 Ensembl | MGI Sequence Detail 6402 Not Applicable  
    polypeptide ENSMUSP00000104132 Ensembl | MGI Sequence Detail 664 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 34
      cDNA 30
      Primer pair 3
      Other 1

      Microarray probesets 6
    References
    more
    • Summaries
      All 58
      Developmental Gene Expression 18
      Gene Ontology 11
      Phenotypes 7
    • Earliest
      J:62516 Gu YZ, et al., Molecular characterization and chromosomal localization of a third alpha-class hypoxia inducible factor subunit, HIF3alpha. Gene Expr. 1998;7(3):205-13
    • Latest
      J:361725 Lou S, et al., Functional variant at 19q13.3 confers nonsyndromic cleft palate susceptibility by regulating HIF3A. iScience. 2025 Feb 21;28(2):111829
    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)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/01/2026
    MGI 6.24     		The Jackson Laboratory