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    Sox9 SRY (sex determining region Y)-box 9 [ Mus musculus (house mouse) ]

    Gene ID: 20682, updated on 15-Oct-2019

    Summary

    Official Symbol
    Sox9provided by MGI
    Official Full Name
    SRY (sex determining region Y)-box 9provided by MGI
    Primary source
    MGI:MGI:98371
    See related
    Ensembl:ENSMUSG00000000567
    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
    AV220920; mKIAA4243; 2010306G03Rik
    Expression
    Broad expression in limb E14.5 (RPKM 30.6), colon adult (RPKM 27.7) and 16 other tissues See more
    Orthologs

    Genomic context

    See Sox9 in Genome Data Viewer
    Location:
    11 E2; 11 77.27 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    108 current GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (112782210..112787757)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (112643524..112649071)

    Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene cDNA sequence BC006965 Neighboring gene Sox9 enhancer SOM Neighboring gene Sox9 testis enhancer TES Neighboring gene Sox9 promoter region Neighboring gene predicted gene 11681 Neighboring gene predicted gene, 30562

    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)

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • KIAA4243

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA-binding transcription factor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    DNA-binding transcription factor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA-binding transcription factor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II proximal promoter sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    RNA polymerase II proximal promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    bHLH transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    beta-catenin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enhancer binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enhancer binding ISO
    Inferred from Sequence Orthology
    more info
     
    enhancer sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    pre-mRNA intronic binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein kinase A catalytic subunit binding ISO
    Inferred from Sequence Orthology
    more info
     
    sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription regulatory region DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    ERK1 and ERK2 cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Harderian gland development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Notch signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Sertoli cell development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    Sertoli cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    anterior head development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    aortic valve morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    astrocyte fate commitment IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    branching involved in ureteric bud morphogenesis IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    bronchus cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cAMP-mediated signaling ISO
    Inferred from Sequence Orthology
    more info
     
    cartilage condensation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell fate commitment IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    cell fate specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell-cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular response to epidermal growth factor stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to heparin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to mechanical stimulus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to retinoic acid IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to transforming growth factor beta stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to transforming growth factor beta stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    central nervous system development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chondrocyte development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    chondrocyte differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    chondrocyte differentiation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    chondrocyte differentiation involved in endochondral bone morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    chondrocyte hypertrophy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    cochlea morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    endocardial cushion morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    endochondral bone morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    endocrine pancreas development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    epidermal growth factor receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    epithelial cell proliferation involved in prostatic bud elongation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    epithelial to mesenchymal transition IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    epithelial tube branching involved in lung morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    epithelial tube branching involved in lung morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    extracellular matrix organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    hair follicle development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    heart development IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    heart development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    heart valve development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    heart valve formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    heart valve morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    homeostasis of number of cells within a tissue IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    intestinal epithelial structure maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    intrahepatic bile duct development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    lacrimal gland development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    limb bud formation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    lung epithelial cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    lung smooth muscle development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    male germ-line sex determination IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    male gonad development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    male gonad development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    male gonad development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    male gonad development ISO
    Inferred from Sequence Orthology
    more info
     
    male sex determination IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    mammary gland development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    metanephric nephron tubule formation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    metanephric tubule development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    morphogenesis of a branching epithelium IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    morphogenesis of a branching epithelium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    morphogenesis of an epithelium IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of biomineral tissue development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of biomineral tissue development ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of bone mineralization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of canonical Wnt signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of chondrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of epithelial cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of epithelial cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of immune system process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of mesenchymal cell apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of myoblast differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of ossification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of photoreceptor cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    negative regulation of pri-miRNA transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of transcription, DNA-templated IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    neural crest cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    notochord development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    nucleosome assembly ISO
    Inferred from Sequence Orthology
    more info
     
    oligodendrocyte differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    oligodendrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    ossification IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    otic vesicle development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    otic vesicle formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of branching involved in ureteric bud morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cartilage development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of cartilage development ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell proliferation involved in heart morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of chondrocyte differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of chondrocyte differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of chondrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of chondrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of epithelial cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of epithelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of epithelial cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of epithelial cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    positive regulation of epithelial cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of extracellular matrix assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of kidney development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of male gonad development ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of mesenchymal cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of mesenchymal stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of phosphatidylinositol 3-kinase signaling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of protein catabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of protein phosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of protein phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription, DNA-templated IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    prostate gland development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    prostate gland morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    protein kinase B signaling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    protein localization to nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of branching involved in lung morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell cycle process ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell proliferation involved in tissue homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of epithelial cell proliferation involved in lung morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription, DNA-templated TAS
    Traceable Author Statement
    more info
    PubMed 
    renal vesicle induction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    retina development in camera-type eye IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    retinal rod cell differentiation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    skeletal system development ISO
    Inferred from Sequence Orthology
    more info
     
    somatic stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    spermatogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    tissue homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    trachea cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    ureter development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    ureter morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    ureter smooth muscle cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    ureter urothelium development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    nuclear transcription factor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    transcription factor SOX-9
    Names
    SRY-box containing gene 9

    NCBI Reference Sequences (RefSeq)

    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_011448.4NP_035578.3  transcription factor SOX-9

      See identical proteins and their annotated locations for NP_035578.3

      Status: VALIDATED

      Source sequence(s)
      AK030187, AL683879
      Consensus CDS
      CCDS25595.1
      UniProtKB/Swiss-Prot
      Q04887
      Related
      ENSMUSP00000000579.2, ENSMUST00000000579.2
      Conserved Domains (2) summary
      cd01388
      Location:104174
      SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...
      pfam12444
      Location:2294
      Sox_N; Sox developmental protein N terminal

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCm38.p6 C57BL/6J

    Genomic

    1. NC_000077.6 Reference GRCm38.p6 C57BL/6J

      Range
      112782210..112787757
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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