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Six2 sine oculis-related homeobox 2 [ Mus musculus (house mouse) ]

Gene ID: 20472, updated on 23-Nov-2021

Summary

Official Symbol
Six2provided by MGI
Official Full Name
sine oculis-related homeobox 2provided by MGI
Primary source
MGI:MGI:102778
See related
Ensembl:ENSMUSG00000024134
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
Expression
Biased expression in limb E14.5 (RPKM 11.3), CNS E11.5 (RPKM 10.4) and 6 other tissues See more
Orthologs
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Genomic context

See Six2 in Genome Data Viewer
Location:
17 E4; 17 55.72 cM
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (85970276..85995682, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (85662736..85688254, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 17 NC_000083.5 (86083608..86087594, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene developmentally regulated GTP binding protein 2 pseudogene Neighboring gene SIX homeobox 3, opposite strand 1 Neighboring gene sine oculis-related homeobox 3 Neighboring gene Riken cDNA CJ186046 gene Neighboring gene predicted gene, 41644

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

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in anterior/posterior axis specification IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within chondrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within condensed mesenchymal cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in embryonic digestive tract morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in kidney development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in kidney development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in kidney development ISO
Inferred from Sequence Orthology
more info
 
involved_in mesenchymal cell differentiation involved in kidney development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mesenchymal stem cell maintenance involved in nephron morphogenesis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mesenchymal stem cell maintenance involved in nephron morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in mesenchymal stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within mesenchymal to epithelial transition involved in metanephros morphogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in mesodermal cell fate specification IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within metanephros development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within middle ear morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nephron development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in nephron morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of chondrocyte proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within protein import into nucleus IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of branching involved in ureteric bud morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of chondrocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of ossification IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
homeobox protein SIX2
Names
sine oculis homeobox homolog 2
sine oculis-related homeobox 2 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_011380.2NP_035510.1  homeobox protein SIX2

    See identical proteins and their annotated locations for NP_035510.1

    Status: VALIDATED

    Source sequence(s)
    AC166821, BC068021
    Consensus CDS
    CCDS29007.1
    UniProtKB/Swiss-Prot
    Q62232
    Related
    ENSMUSP00000125871.3, ENSMUST00000163568.4
    Conserved Domains (2) summary
    cd00086
    Location:129180
    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:9118
    SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    85970276..85995682 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011246335.4XP_011244637.1  homeobox protein SIX2 isoform X2

    Conserved Domains (2) summary
    cd00086
    Location:129180
    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:9118
    SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain
  2. XM_006523931.5XP_006523994.1  homeobox protein SIX2 isoform X1

    Conserved Domains (2) summary
    cd00086
    Location:129180
    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:9118
    SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain
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