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    Six6 sine oculis-related homeobox 6 [ Mus musculus (house mouse) ]

    Gene ID: 20476, updated on 9-Dec-2024

    Summary

    Official Symbol
    Six6provided by MGI
    Official Full Name
    sine oculis-related homeobox 6provided by MGI
    Primary source
    MGI:MGI:1341840
    See related
    Ensembl:ENSMUSG00000021099 AllianceGenome:MGI:1341840
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Six9; Optx2
    Summary
    This gene encodes a homeobox protein that is similar to the Drosophila 'sine oculis' gene product. This gene is found in a cluster of related genes on chromosome 12 and is thought to be involved in eye development. The encoded transcription factor regulates early progenitor cell proliferation during mammalian retinogenesis and pituitary development. Mice lacking this gene exhibit abnormal development of the suprachiasmatic nucleus and circadian rhythms. [provided by RefSeq, Sep 2015]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
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    Genomic context

    See Six6 in Genome Data Viewer
    Location:
    12 C3; 12 30.31 cM
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (72986656..72991673)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (72939882..72944899)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_32453 Neighboring gene STARR-seq mESC enhancer starr_32455 Neighboring gene predicted gene, 40441 Neighboring gene RIKEN cDNA 4930447C04 gene Neighboring gene STARR-seq mESC enhancer starr_32458 Neighboring gene microRNA 9718 Neighboring gene STARR-seq mESC enhancer starr_32461 Neighboring gene sine oculis-related homeobox 1 Neighboring gene STARR-seq mESC enhancer starr_32463 Neighboring gene sine oculis-related homeobox 4 Neighboring gene menage a trois 1

    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)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in eye development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    homeobox protein SIX6
    Names
    optic homeobox 2
    sine oculis homeobox homolog 6
    sine oculis-related homeobox 6 homolog

    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_011384.5NP_035514.1  homeobox protein SIX6

      See identical proteins and their annotated locations for NP_035514.1

      Status: REVIEWED

      Source sequence(s)
      AC159823, AK029309
      Consensus CDS
      CCDS25972.1
      UniProtKB/Swiss-Prot
      O88423, Q9QZ28
      UniProtKB/TrEMBL
      B2RSE8
      Related
      ENSMUSP00000021519.5, ENSMUST00000021519.7
      Conserved Domains (2) summary
      cd00086
      Location:130178
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      pfam16878
      Location:9122
      SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000078.7 Reference GRCm39 C57BL/6J

      Range
      72986656..72991673
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)