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    Hoxa3 homeobox A3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 103690130, updated on 2-Nov-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 endocrine system development; skeletal system development; and specification of animal organ position. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXA3 (homeobox A3). [provided by Alliance of Genome Resources, Nov 2024]
    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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    Chemical Information
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    Research Materials