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Hoxa9 Gene Detail
Summary
  • Symbol
    Hoxa9
  • Name
    homeobox A9
  • Synonyms
    D6a9, Hox-1.7
  • Feature Type
    protein coding gene
  • IDs
    MGI:96180
    NCBI Gene: 15405
  • Member of
    Hoxa cluster
  • Alliance
    gene page
  • Transcription Start Sites
    7 TSS
Location &
Maps
more
  • Sequence Map
    Chr6:52200077-52204350 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 6, 25.40 cM
  • Mapping Data
    9 experiments
Strain
Comparison
more
  • SNPs within 2kb
    17 from dbSNP Build 142
  • Strain Annotations
    18
  • PCR
    1
  • RFLP
    2
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_96180
 protein coding gene Chr6:52200077-52208069 (-)
129S1/SvImJ MGP_129S1SvImJ_G0030747
 protein coding gene Chr6:51464260-51472260 (-)
A/J MGP_AJ_G0030716
 protein coding gene Chr6:49058936-49066921 (-)
AKR/J MGP_AKRJ_G0030643
 protein coding gene Chr6:50765340-50773340 (-)
BALB/cJ MGP_BALBcJ_G0030728
 protein coding gene Chr6:49419585-49427569 (-)
C3H/HeJ MGP_C3HHeJ_G0030441
 protein coding gene Chr6:50774399-50782377 (-)
C57BL/6NJ MGP_C57BL6NJ_G0031183
 protein coding gene Chr6:52600579-52608558 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0028389
 protein coding gene Chr6:46706741-46714764 (-)
CAST/EiJ MGP_CASTEiJ_G0029844
 protein coding gene Chr6:50589354-50597324 (-)
CBA/J MGP_CBAJ_G0030415
 protein coding gene Chr6:54799743-54809576 (-)
DBA/2J MGP_DBA2J_G0030565
 protein coding gene Chr6:48981357-48989342 (-)
FVB/NJ MGP_FVBNJ_G0030517
 protein coding gene Chr6:48592943-48600920 (-)
LP/J MGP_LPJ_G0030650
 protein coding gene Chr6:51442949-51450949 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0030551
 protein coding gene Chr6:57429373-57437375 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0031213
 protein coding gene Chr6:50694012-50702012 (-)
PWK/PhJ MGP_PWKPhJ_G0029557
 protein coding gene Chr6:48605357-48613322 (-)
SPRET/EiJ MGP_SPRETEiJ_G0029391
 protein coding gene Chr6:50029440-50037415 (-)
WSB/EiJ MGP_WSBEiJ_G0029921
 protein coding gene Chr6:50710176-50718175 (-)



Homology
more
  • Human Ortholog
    HOXA9, homeobox A9
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    HOXA9, homeobox A9
  • Synonyms
    ABD-B, HOX1, HOX1.7, HOX1G
  • Links
    NCBI Gene ID: 3205
    neXtProt AC: NX_P31269
    UniProt: P31269

  • Chr Location
    7p15.2; chr7:27162438-27165530 (-)  GRCh38.p7
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    8 phenotypes from 2 alleles in 2 genetic backgrounds
    33 phenotypes from multigenic genotypes
    44 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
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
vision/eye

Click cells to view annotations.
Homozygotes for targeted null mutations exhibit homeotic transformations affecting lumbar vertebrae, reduced spleen and thymus weights, and defects in myeloid, erythroid, and lymphoid hematopoiesis.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    54
  • GO References
    18
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 death
cell differentiation
cell population proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
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
non-membrane-bounded 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
    1221
  • Tissues
    260
  • cDNA Data
    26
  • Literature Summary
    80
  • Comparison Matrix
    Gene Expression + Phenotype
    • Interactions
    less
    Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 15405 NCBI Gene Model | MGI Sequence Detail 4274 C57BL/6J ±  kb
    transcript NM_010456 RefSeq | MGI Sequence Detail 3229 C57BL/6  
    polypeptide P09631 UniProt | EBI | MGI Sequence Detail 271 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 73
      Genomic 17
      cDNA 28
      Primer pair 18
      Other 10

      Microarray probesets 5
    Other
    Accession IDs
    less
    MGD-MRK-10823, MGD-MRK-10881
    References
    more
    • Summaries
      All 172
      Developmental Gene Expression 80
      Gene Ontology 18
      Phenotypes 44
    • Earliest
      J:8939 Rubin MR, et al., Murine Hox-1.7 homeo-box gene: cloning, chromosomal location, and expression [published erratum appears in Mol Cell Biol 1988 Dec;8(12):5593]. Mol Cell Biol. 1987 Oct;7(10):3836-41
    • Latest
      J:314242 Yoshioka K, et al., Hoxa10 mediates positional memory to govern stem cell function in adult skeletal muscle. Sci Adv. 2021 Jun;7(24)
    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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    01/24/2023
    MGI 6.22     		The Jackson Laboratory