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    sox2 SRY-box transcription factor 2 [ Danio rerio (zebrafish) ]

    Gene ID: 378723, updated on 24-Nov-2024

    Summary

    Official Symbol
    sox2provided by ZNC
    Official Full Name
    SRY-box transcription factor 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030909-1
    See related
    Ensembl:ENSDARG00000070913 AllianceGenome:ZFIN:ZDB-GENE-030909-1
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    soxp; cb236; zgc:65860; zgc:77389; wu:fb83g04; wu:fc14d07
    Summary
    Enables chromatin binding activity and sequence-specific DNA binding activity. Contributes to DNA-binding transcription factor activity. Acts upstream of or within several processes, including fin regeneration; nervous system development; and otic placode development. Predicted to be located in cytoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in several structures, including digestive system; immature eye; nervous system; neural keel; and presumptive structure. Human ortholog(s) of this gene implicated in breast cancer; nasal cavity cancer; and syndromic microphthalmia 3. Orthologous to human SOX2 (SRY-box transcription factor 2). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
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    Genomic context

    See sox2 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (37347893..37349978, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (37412975..37415060, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene ATPase phospholipid transporting 11B Neighboring gene uncharacterized LOC110438287 Neighboring gene SOX2 overlapping transcript Neighboring gene DnaJ (Hsp40) homolog, subfamily C, member 19 Neighboring gene FMR1 autosomal homolog 1

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in brain development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within epithalamus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within eye morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within fin regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in forebrain development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in inner ear development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within inner ear receptor cell development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within inner ear receptor cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within otic placode development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within otic vesicle development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pineal gland development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of motor neuron axon guidance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within spinal cord motor neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    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
     
    part_of transcription regulator complex IC
    Inferred by Curator
    more info
    PubMed 

    General protein information

    Preferred Names
    transcription factor Sox-2
    Names
    SRY (sex determining region Y)-box 2
    SRY-box containing gene 2
    transcription factor SOX2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_213118.1NP_998283.1  transcription factor Sox-2

      See identical proteins and their annotated locations for NP_998283.1

      Status: PROVISIONAL

      Source sequence(s)
      BC065656
      UniProtKB/Swiss-Prot
      Q6P0E1
      Related
      ENSDARP00000095266.3, ENSDART00000104493.5
      Conserved Domains (2) summary
      cd01388
      Location:37108
      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 ...
      pfam12336
      Location:107197
      SOXp; SOX transcription factor

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007133.7 Reference GRCz11 Primary Assembly

      Range
      37347893..37349978 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)