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Hoxd3 homeobox D3 [ Mus musculus (house mouse) ]

Gene ID: 15434, updated on 26-Sep-2022

Summary

Official Symbol
Hoxd3provided by MGI
Official Full Name
homeobox D3provided by MGI
Primary source
MGI:MGI:96207
See related
Ensembl:ENSMUSG00000079277 AllianceGenome:MGI:96207
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Hox-4.1; Hox-5.5
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including glossopharyngeal nerve morphogenesis; skeletal system development; and thyroid gland development. Predicted to be located in aggresome and nuclear body. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; embryo mesenchyme; genitourinary system; and gut. Orthologous to human HOXD3 (homeobox D3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in ovary adult (RPKM 19.8), genital fat pad adult (RPKM 17.5) and 11 other tissues See more
Orthologs
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Genomic context

See Hoxd3 in Genome Data Viewer
Location:
2 C3; 2 44.13 cM
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (74542337..74578615)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (74711993..74748271)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene homeobox D9 Neighboring gene predicted gene, 38462 Neighboring gene homeobox D8 Neighboring gene homeobox D3, opposite strand 1 Neighboring gene homeobox D4 Neighboring gene microRNA 10b Neighboring gene Hoxd antisense growth associated long non-coding RNA Neighboring gene predicted gene 14424 Neighboring gene homeobox D1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in Notch signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in anterior/posterior pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within anterior/posterior pattern specification IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within anterior/posterior pattern specification IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cartilage development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in cell-matrix adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of neuron differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within thyroid gland development IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in aggresome ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
homeobox protein Hox-D3
Names
homeo box D3
homeo box D4
homeobox protein Hox-4.1
homeobox protein MH-19

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_010468.2NP_034598.2  homeobox protein Hox-D3

    See identical proteins and their annotated locations for NP_034598.2

    Status: VALIDATED

    Source sequence(s)
    AK133705, AK138525
    Consensus CDS
    CCDS38149.1
    UniProtKB/Swiss-Prot
    P09027, Q3UUD3
    UniProtKB/TrEMBL
    Q3UZR4
    Related
    ENSMUSP00000107614.3, ENSMUST00000111983.9
    Conserved Domains (2) summary
    pfam00046
    Location:199251
    Homeobox; Homeobox domain
    pfam13293
    Location:370431
    DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    74542337..74578615
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)