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Hoxd9
Gene Detail
Symbol

Name
ID
Member of
Hoxd9
homeobox D9
MGI:96210
Hoxd cluster
Synonyms
Hox-4.4, Hox-5.2
Feature Type
protein coding gene
Genetic Map
Chromosome 2
44.13 cM
Detailed Genetic Map ± 1 cM


Mapping data(13)
Sequence Map
Chr2:74697727-74700208 bp, + strand
From VEGA annotation of GRCm38

  2482 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:8409  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 cattle; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: HOXD9
Protein SuperFamily: homeobox protein, Hox9 type
Gene Tree: Hoxd9

Human
homologs
HOXD9, homeobox D9
Orthology source: HomoloGene

IDs:
NCBI Gene ID: 3235
neXtProt AC: NX_P28356

Human Synonyms: HOX4, Hox-4.3, HOX4C, Hox-5.2

Human Chr (Location): 2q31.1; chr2:176122685-176124917 (+)  GRCh38.p2

Mutations,
alleles, and
phenotypes
All mutations/alleles(31) : Spontaneous(1) Targeted(30)
Genomic Mutations involving Hoxd9 (26)
Incidental mutations (data from Mutagenetix , APF )
 
Mice homozygous for a targeted mutation exhibit anterior transformation of lumbar, sacral, and caudal vertebrae with abnormal humerus morphology.
 
Interactions
Hoxd9 interacts with 131 markers (Mir7-1, Mir7-2, Mir7b, ...)
Gene Ontology
(GO)
classifications
Expression
Literature Summary: (60 records)
Data Summary: Results (429)    Tissues (162)    Images (44)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 226
RT-PCR 203
cDNA source data(20)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: GEISHA HOXD9 ; Xenbase hoxd9 ; ZFIN hoxd9a    NEW 
Molecular
reagents
All nucleic(44) Genomic(13) cDNA(20) Primer pair(10) Other(1)
Microarray probesets(2)
Other database
links
VEGA Gene Model OTTMUSG00000016552 (Evidence)
Ensembl Gene Model ENSMUSG00000043342 (Evidence)
Entrez Gene 15438 (Evidence)
UniGene 26544
DFCI TC1585017
DoTS DT.489308
NIA Mouse Gene Index U124010
Consensus CDS Project CCDS16142.1
International Mouse Phenotyping Consortium Status Hoxd9
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000016552 VEGA Gene Model | MGI Sequence Detail 2482 C57BL/6J ±  kb
transcript OTTMUST00000040004 VEGA | MGI Sequence Detail 2136 Not Applicable 
polypeptide OTTMUSP00000017844 VEGA | MGI Sequence Detail 339 Not Applicable 

For the selected sequences
All sequences(17) RefSeq(2) UniProt(1)
Polymorphisms
PCR(2) : SNPs within 2kb(3 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR017970 Homeobox, conserved site
InterPro IPR001356 Homeodomain
InterPro IPR009057 Homeodomain-like
InterPro IPR020479 Homeodomain, metazoa
InterPro IPR006711 Hox9, N-terminal activation domain
Protein Ontology PR:000008724 homeobox protein Hox-D9
References
(Earliest) J:9875 Oliver G, et al., Complementary homeo protein gradients in developing limb buds. Genes Dev. 1989 May;3(5):641-50
(Latest) J:217206 Neufeld SJ, et al., Genetic interactions between Shox2 and Hox genes during the regional growth and development of the mouse limb. Genetics. 2014 Nov;198(3):1117-26
All references(99)
Other
accession IDs
MGD-MRK-10851, MGD-MRK-10859, MGD-MRK-10911

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
07/21/2015
MGI 5.22
The Jackson Laboratory