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

Gene ID: 20476, updated on 12-May-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
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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
 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
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
 
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)

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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_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)