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Hoxa3 homeobox A3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 103690130, updated on 17-Aug-2024

Summary

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Symbol
Hoxa3provided by RGD
Full Name
homeobox A3provided by RGD
Primary source
RGD:1561431
See related
EnsemblRapid:ENSRNOG00000006281 AllianceGenome:RGD:1561431
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1561431
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; HMG box domain binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including angiogenesis; embryonic skeletal system morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to act 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. Orthologous to human HOXA3 (homeobox A3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 43.7), Adrenal (RPKM 19.5) and 4 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Hoxa3 in Genome Data Viewer
Location:
4q24
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (82599860..82643831, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (81269243..81313218, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (82137802..82181836, complement)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene Hoxa transcript antisense RNA, myeloid-specific 1 Neighboring gene homeobox A2 Neighboring gene uncharacterized LOC120102276 Neighboring gene homeobox A3 like 1 Neighboring gene homeo box A4 Neighboring gene Hoxa cluster antisense RNA 3 Neighboring gene homeo box A5 Neighboring gene homeobox A6 Neighboring gene homeobox A7 Neighboring gene homeobox A9

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Hoxa3 regulates the proliferation and differentiation of the third pharyngeal arch mesenchyme in mice. Chisaka O, et al. Cell Tissue Res, 2005 Apr. PMID 15714286
  2. HoxA3 is an apical regulator of haemogenic endothelium. Iacovino M, et al. Nat Cell Biol, 2011 Jan. PMID 21170035, Free PMC Article
  3. The role of Hoxa3 gene in parathyroid gland organogenesis of the mouse. Kameda Y, et al. J Histochem Cytochem, 2004 May. PMID 15100241
  4. Molecular cloning of human and bovine LECT2 having a neutrophil chemotactic activity and its specific expression in the liver. Yamagoe S, et al. Biochim Biophys Acta, 1998 Mar 4. PMID 9524238
  5. Mice with targeted disruptions in the paralogous genes hoxa-3 and hoxd-3 reveal synergistic interactions. Condie BG, et al. Nature, 1994 Jul 28. PMID 7913519

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables HMG box domain binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in angiogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within animal organ formation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within animal organ morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in anterior/posterior pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within anterior/posterior pattern specification ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within blood vessel remodeling ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cartilage development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within embryonic skeletal system development ISO
Inferred from Sequence Orthology
more info
  
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within embryonic skeletal system morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of gene expression ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within parathyroid gland development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of stem cell proliferation ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of stem cell proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within thymus development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within thyroid gland development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
homeobox protein Hox-A3
Names
homeobox protein Hox-A3-like

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_001313820.1 → NP_001300749.1  homeobox protein Hox-A3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    A6K0Q4, D3ZM81
    Related
    ENSRNOP00000008447.3, ENSRNOT00000008447.6
    Conserved Domains (3) summary
    COG5576
    Location:182 → 309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196 → 249
    Homeobox; Homeobox domain
    pfam13293
    Location:379 → 442
    DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086022.1 Reference GRCr8

    Range
    82599860..82643831 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039106897.2 → XP_038962825.1  homeobox protein Hox-A3 isoform X1

    UniProtKB/TrEMBL
    A6K0Q4, D3ZM81
    Conserved Domains (3) summary
    COG5576
    Location:182 → 309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196 → 249
    Homeobox; Homeobox domain
    pfam13293
    Location:379 → 442
    DUF4074; Domain of unknown function (DUF4074)

  2. XM_008773712.4 → XP_008771934.1  homeobox protein Hox-A3 isoform X1

    See identical proteins and their annotated locations for XP_008771934.1

    UniProtKB/TrEMBL
    A6K0Q4, D3ZM81
    Conserved Domains (3) summary
    COG5576
    Location:182 → 309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196 → 249
    Homeobox; Homeobox domain
    pfam13293
    Location:379 → 442
    DUF4074; Domain of unknown function (DUF4074)

  3. XM_006257707.4 → XP_006257769.1  homeobox protein Hox-A3 isoform X1

    See identical proteins and their annotated locations for XP_006257769.1

    UniProtKB/TrEMBL
    A6K0Q4, D3ZM81
    Conserved Domains (3) summary
    COG5576
    Location:182 → 309
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:196 → 249
    Homeobox; Homeobox domain
    pfam13293
    Location:379 → 442
    DUF4074; Domain of unknown function (DUF4074)
Nucleotide Protein Strain
Heading Accession and Version

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