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Hoxd3 Gene Detail
Summary
  • Symbol
    Hoxd3
  • Name
    homeobox D3
  • Synonyms
    Hox-4.1, Hox-5.5
  • Feature Type
    protein coding gene
  • IDs
    MGI:96207
    NCBI Gene: 15434
  • Member of
    Hoxd cluster
  • Alliance
    gene page
  • Transcription Start Sites
    6 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:74542337-74578615 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 2, 44.13 cM, cytoband C2
  • Mapping Data
    11 experiments
Strain
Comparison
more
  • SNPs within 2kb
    582 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_96207
 protein coding gene Chr2:74542271-74578786 (+)
129S1/SvImJ MGP_129S1SvImJ_G0025851
 protein coding gene Chr2:75025753-75064871 (+)
A/J MGP_AJ_G0025829
 protein coding gene Chr2:72093076-72129392 (+)
AKR/J MGP_AKRJ_G0025797
 protein coding gene Chr2:74046431-74084411 (+)
BALB/cJ MGP_BALBcJ_G0025823
 protein coding gene Chr2:72280340-72317006 (+)
C3H/HeJ MGP_C3HHeJ_G0025583
 protein coding gene Chr2:74234483-74274985 (+)
C57BL/6NJ MGP_C57BL6NJ_G0026270
 protein coding gene Chr2:77262795-77301212 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0023673
 protein coding gene Chr2:69516325-69553117 (+)
CAST/EiJ MGP_CASTEiJ_G0025047
 protein coding gene Chr2:74551550-74589513 (+)
CBA/J MGP_CBAJ_G0025564
 protein coding gene Chr2:80085608-80128672 (+)
DBA/2J MGP_DBA2J_G0025695
 protein coding gene Chr2:71700569-71738027 (+)
FVB/NJ MGP_FVBNJ_G0025657
 protein coding gene Chr2:71089043-71125976 (+)
LP/J MGP_LPJ_G0025783
 protein coding gene Chr2:74890133-74926670 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0025688
 protein coding gene Chr2:81996491-82033006 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0026327
 protein coding gene Chr2:74162942-74201239 (+)
PWK/PhJ MGP_PWKPhJ_G0024788
 protein coding gene Chr2:71630918-71667880 (+)
SPRET/EiJ MGP_SPRETEiJ_G0024596
 protein coding gene Chr2:74395592-74431950 (+)
WSB/EiJ MGP_WSBEiJ_G0025115
 protein coding gene Chr2:74600658-74639088 (+)



Homology
more
  • Human Ortholog
    HOXD3, homeobox D3
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    HOXD3, homeobox D3
  • Synonyms
    HOX1D, HOX4, Hox-4.1, HOX4A
  • Links
    NCBI Gene ID: 3232
    neXtProt AC: NX_P31249
    UniProt: P31249

  • Chr Location
    2q31.1; chr2:176136612-176173102 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    14 phenotypes from 3 alleles in 2 genetic backgrounds
    21 phenotypes from multigenic genotypes
    49 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 show partial postnatal lethality, asymmetric rib-sternum attachment, and anterior transformations of the cervical vertebrae I (atlas) and II (axis). Mice homozygous for a different knock-out allele lack the anteriorarch of the atlas and the dens of the axis.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    37
  • GO References
    8
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
    1087
  • Tissues
    187
  • cDNA Data
    17
  • Literature Summary
    58
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 15434 NCBI Gene Model | MGI Sequence Detail 36279 C57BL/6J ±  kb
    transcript NM_010468 RefSeq | MGI Sequence Detail 2902 ZRU/MplStud  
    polypeptide P09027 UniProt | EBI | MGI Sequence Detail 433 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 43
      Genomic 10
      cDNA 18
      Primer pair 6
      Other 9

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-10848, MGD-MRK-10862, MGD-MRK-10908
    References
    more
    • Summaries
      All 124
      Developmental Gene Expression 58
      Gene Ontology 8
      Phenotypes 49
    • Earliest
      J:8920 Lonai P, et al., New murine homeoboxes: structure, chromosomal assignment, and differential expression in adult erythropoiesis. DNA. 1987 Oct;6(5):409-18
    • Latest
      J:326160 Hintermann A, et al., Developmental and evolutionary comparative analysis of a regulatory landscape in mouse and chicken. Development. 2022 Jun 15;149(12):dev200594
    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
    12/10/2024
    MGI 6.24     		The Jackson Laboratory