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Hoxd1
Gene Detail
Symbol

Name
ID
Member of
Hoxd1
homeobox D1
MGI:96201
Hoxd cluster
Synonyms
Hox-4.9
Feature Type
protein coding gene
Genetic Map
Chromosome 2
44.13 cM
Detailed Genetic Map ± 1 cM


Mapping data(4)
Sequence Map
Chr2:74762980-74765142 bp, + strand
From VEGA annotation of GRCm38

  2163 bp   ±  kb flank

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


Mouse Genome Browser
Vertebrate
homology
HomoloGene:7772  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 cattle; 1 dog; 1 western clawed frog

HCOP human homology predictions: HOXD1
Gene Tree: Hoxd1

Human
homologs
HOXD1, homeobox D1
Orthology source: HomoloGene

IDs:
NCBI Gene ID: 3231
neXtProt AC: NX_Q9GZZ0

Human Synonyms: HOX4, Hox-4.7, HOX4G

Human Chr (Location): 2q31.1; chr2:176188579-176190907 (+)  GRCh38.p2

Mutations,
alleles, and
phenotypes
All mutations/alleles(11) : Targeted(11)
Genomic Mutations involving Hoxd1 (9)
 
Mice homozygous for a reporter allele display abnormal cervical vertebrae. Mice homozygous for a knock-out allele exhibit abnormal nociceptor innervation of the skin, aberrant nociceptor axonal projections in the spinal cord, and deficits in pain sensitivity.
 
Interactions
Hoxd1 interacts with 166 markers (Mir1a-1, Mir1a-2, Mir1b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (11 annotations)
Process embryonic skeletal system development, multicellular organismal development, ...
Component nucleus
Function DNA binding, sequence-specific DNA binding
External Resources: FuncBase
Expression
Literature Summary: (26 records)
Data Summary: Results (79)    Tissues (70)    Images (15)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 71
Northern blot 2
RT-PCR 6
cDNA source data(11)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: Xenbase hoxd1    NEW 
Molecular
reagents
All nucleic(25) Genomic(9) cDNA(12) Primer pair(3) Other(1)
Microarray probesets(4)
Other database
links
VEGA Gene Model OTTMUSG00000016601 (Evidence)
Ensembl Gene Model ENSMUSG00000042448 (Evidence)
Entrez Gene 15429 (Evidence)
UniGene 4932
DFCI TC1591245
DoTS DT.55172802
Consensus CDS Project CCDS16147.1
International Mouse Phenotyping Consortium Status Hoxd1
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000016601 VEGA Gene Model | MGI Sequence Detail 2163 C57BL/6J ±  kb
transcript OTTMUST00000040130 VEGA | MGI Sequence Detail 1862 Not Applicable 
polypeptide OTTMUSP00000017905 VEGA | MGI Sequence Detail 328 Not Applicable 

For the selected sequences
All sequences(18) RefSeq(2) UniProt(1)
Polymorphisms
RFLP(1) : SNPs within 2kb(14 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR017970 Homeobox, conserved site
InterPro IPR001356 Homeodomain
InterPro IPR009057 Homeodomain-like
InterPro IPR020479 Homeodomain, metazoa
Protein Ontology PR:000008716 homeobox protein Hox-D1
References
(Earliest) J:9607 Ferguson-Smith AC, et al., The genomics of human homeobox-containing loci. Pathol Immunopathol Res. 1988;7(1-2):119-26
(Latest) J:206879 Huang T, et al., BDNF and NT4 play interchangeable roles in gustatory development. Dev Biol. 2014 Feb 15;386(2):308-20
All references(55)
Other
accession IDs
MGD-MRK-10856, MGD-MRK-10902

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
08/18/2015
MGI 6.0
The Jackson Laboratory