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    Shox2 SHOX homeobox 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25546, updated on 9-Dec-2024

    Summary

    Official Symbol
    Shox2provided by RGD
    Official Full Name
    SHOX homeobox 2provided by RGD
    Primary source
    RGD:3674
    See related
    EnsemblRapid:ENSRNOG00000012478 AllianceGenome:RGD:3674
    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
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Predicted to be involved in several processes, including heart development; positive regulation of cell development; and regulation of branching morphogenesis of a nerve. Predicted to act upstream of or within several processes, including heart development; positive regulation of cell population proliferation; and skeletal system development. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in lung cancer. Orthologous to human SHOX2 (SHOX homeobox 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 18.8), Muscle (RPKM 15.3) and 6 other tissues See more
    Orthologs
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    Genomic context

    See Shox2 in Genome Data Viewer
    Location:
    2q31
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (153524324..153537571, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (151217049..151227180, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (164118175..164126783, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120100839 Neighboring gene aminoacyl tRNA synthetase complex-interacting multifunctional protein 1, pseudogene 2 Neighboring gene arginine and serine rich coiled-coil 1 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene uncharacterized LOC134485626

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    General gene information

    Gene Ontology Provided by RGD

    Items 1 - 25 of 52
    Process Evidence Code Pubs
    acts_upstream_of_or_within cardiac atrium morphogenesis  
    involved_in cardiac pacemaker cell differentiation  
    involved_in cardiac right atrium morphogenesis  
    involved_in cardiac right atrium morphogenesis  
    involved_in cartilage development involved in endochondral bone morphogenesis  
    acts_upstream_of_or_within cartilage development involved in endochondral bone morphogenesis  
    involved_in chondrocyte development  
    acts_upstream_of_or_within chondrocyte development  
    acts_upstream_of_or_within chondrocyte differentiation  
    involved_in embryonic digestive tract morphogenesis  
    acts_upstream_of_or_within embryonic digestive tract morphogenesis  
    involved_in embryonic forelimb morphogenesis  
    acts_upstream_of_or_within embryonic forelimb morphogenesis  
    acts_upstream_of_or_within embryonic limb morphogenesis  
    acts_upstream_of_or_within embryonic morphogenesis  
    involved_in embryonic skeletal joint morphogenesis  
    acts_upstream_of_or_within embryonic skeletal joint morphogenesis  
    acts_upstream_of_or_within heart valve development  
    involved_in mesenchymal cell proliferation  
    acts_upstream_of mesenchymal cell proliferation  
    involved_in muscle tissue morphogenesis  
    involved_in muscle tissue morphogenesis  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in osteoblast differentiation  
    acts_upstream_of_or_within osteoblast differentiation  
    involved_in positive regulation of axonogenesis  
    involved_in positive regulation of axonogenesis  
    involved_in positive regulation of mesenchymal cell proliferation  
    acts_upstream_of_or_within positive regulation of mesenchymal cell proliferation  
    involved_in positive regulation of skeletal muscle fiber development  
    involved_in positive regulation of skeletal muscle fiber development  
    involved_in positive regulation of smoothened signaling pathway  
    acts_upstream_of_or_within positive regulation of smoothened signaling pathway  
    involved_in positive regulation of stem cell proliferation  
    acts_upstream_of_or_within positive regulation of stem cell proliferation  
    involved_in regulation of branching morphogenesis of a nerve  
    involved_in regulation of branching morphogenesis of a nerve  
    involved_in regulation of chondrocyte differentiation  
    acts_upstream_of_or_within regulation of chondrocyte differentiation  
    involved_in regulation of heart rate  
    acts_upstream_of regulation of heart rate  
    involved_in regulation of transcription by RNA polymerase II  
    involved_in sinoatrial node cell development  
    involved_in sinoatrial node cell development  
    involved_in sinoatrial node development  
    involved_in sinoatrial valve development  
    involved_in sinoatrial valve development  
    involved_in smoothened signaling pathway  
    acts_upstream_of smoothened signaling pathway  
    involved_in stem cell proliferation  
    acts_upstream_of stem cell proliferation  
    Items 1 - 25 of 52
    Component Evidence Code Pubs
    is_active_in nucleus  
    located_in nucleus  

    General protein information

    Preferred Names
    short stature homeobox protein 2
    Names
    paired family homeodomain protein Prx3
    short stature homeobox 2

    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_013028.2NP_037160.2  short stature homeobox protein 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      A6J5K8, G3V7M9
      Related
      ENSRNOP00000016843.5, ENSRNOT00000016843.7
      Conserved Domains (2) summary
      pfam00046
      Location:143197
      Homeobox; Homeobox domain
      pfam03826
      Location:311327
      OAR; OAR domain

    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_086020.1 Reference GRCr8

      Range
      153524324..153537571 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039101799.2XP_038957727.1  short stature homeobox protein 2 isoform X1

      UniProtKB/TrEMBL
      A6J5K7
      Conserved Domains (2) summary
      pfam00046
      Location:143197
      Homeobox; Homeobox domain
      pfam03826
      Location:299315
      OAR; OAR domain
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