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Hoxa3 homeobox A3 [ Mus musculus (house mouse) ]

Gene ID: 15400, updated on 5-Mar-2024

Summary

Official Symbol
Hoxa3provided by MGI
Official Full Name
homeobox A3provided by MGI
Primary source
MGI:MGI:96175
See related
Ensembl:ENSMUSG00000079560 AllianceGenome:MGI:96175
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
Mo-10; Hox-1.5
Summary
Enables DNA-binding transcription factor activity and HMG box domain binding activity. Acts upstream of or within several processes, including animal organ development; blood vessel remodeling; and glossopharyngeal nerve morphogenesis. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; embryo mesenchyme; genitourinary system; gut; and nervous system. Used to study DiGeorge syndrome. Orthologous to human HOXA3 (homeobox A3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in colon adult (RPKM 3.5), ovary adult (RPKM 2.4) and 19 other tissues See more
Orthologs
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Genomic context

See Hoxa3 in Genome Data Viewer
Location:
6 B3; 6 25.4 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (52146039..52190316, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (52169059..52213067, complement)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene Hoxa transcript antisense RNA, myeloid-specific 2 Neighboring gene Hoxa transcript antisense RNA, myeloid-specific 1 Neighboring gene homeobox A2 Neighboring gene Hoxa cluster antisense RNA 2 Neighboring gene RIKEN cDNA 5730596B20 gene Neighboring gene predicted gene 15050 Neighboring gene predicted gene, 57749 Neighboring gene homeobox A4 Neighboring gene Hoxa cluster antisense RNA 3 Neighboring gene homeobox A5 Neighboring gene homeobox A6 Neighboring gene homeobox A7 Neighboring gene mistral long non-coding RNA Neighboring gene predicted gene, 57855 Neighboring gene homeobox A9

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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (9)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within animal organ formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in anterior/posterior pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within anterior/posterior pattern specification IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within blood vessel remodeling IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cartilage development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of gene expression TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within parathyroid gland development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of parathyroid gland development TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within positive regulation of stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
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
 
acts_upstream_of_or_within specification of animal organ position IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within thymus development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within thymus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of thymus development TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within thyroid gland development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within thyroid gland development IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
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
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
homeobox protein Hox-A3
Names
homeo box A3
homeobox protein Hox-1.5
homeobox protein MO-10

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_010452.4NP_034582.1  homeobox protein Hox-A3

    See identical proteins and their annotated locations for NP_034582.1

    Status: VALIDATED

    Source sequence(s)
    AC015583, AC091106
    Consensus CDS
    CCDS20140.1
    UniProtKB/Swiss-Prot
    P02831, Q4V9Z8, Q61197
    Related
    ENSMUSP00000110077.3, ENSMUST00000114434.9
    Conserved Domains (3) summary
    COG5576
    Location:182309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196249
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    52146039..52190316 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017321404.3XP_017176893.1  homeobox protein Hox-A3 isoform X1

    UniProtKB/Swiss-Prot
    P02831, Q4V9Z8, Q61197
    Conserved Domains (3) summary
    COG5576
    Location:182309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196249
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  2. XM_017321403.2XP_017176892.1  homeobox protein Hox-A3 isoform X1

    UniProtKB/Swiss-Prot
    P02831, Q4V9Z8, Q61197
    Conserved Domains (3) summary
    COG5576
    Location:182309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196249
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  3. XM_017321402.2XP_017176891.1  homeobox protein Hox-A3 isoform X1

    UniProtKB/Swiss-Prot
    P02831, Q4V9Z8, Q61197
    Conserved Domains (3) summary
    COG5576
    Location:182309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196249
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  4. XM_011241225.4XP_011239527.1  homeobox protein Hox-A3 isoform X1

    See identical proteins and their annotated locations for XP_011239527.1

    UniProtKB/Swiss-Prot
    P02831, Q4V9Z8, Q61197
    Conserved Domains (3) summary
    COG5576
    Location:182309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196249
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)