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Six3os1 SIX homeobox 3, opposite strand 1 [ Mus musculus (house mouse) ]

Gene ID: 100043902, updated on 26-Sep-2022

Summary

Official Symbol
Six3os1provided by MGI
Official Full Name
SIX homeobox 3, opposite strand 1provided by MGI
Primary source
MGI:MGI:1925118
See related
Ensembl:ENSMUSG00000093460 AllianceGenome:MGI:1925118
Gene type
ncRNA
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
Rncr1; Six3os; D17Mgi26; E130112H22Rik
Summary
Acts upstream of or within regulation of photoreceptor cell differentiation. Located in cytoplasm and nucleus. Is expressed in central nervous system; future brain; maxillary process; and sensory organ. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in whole brain E14.5 (RPKM 4.1), CNS E14 (RPKM 3.8) and 2 other tissues See more
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Genomic context

See Six3os1 in Genome Data Viewer
Location:
17; 17 E4
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (85909360..85925824, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (85601932..85618396, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L31, pseudogene 16 Neighboring gene developmentally regulated GTP binding protein 2 pseudogene Neighboring gene sine oculis-related homeobox 3 Neighboring gene sine oculis-related homeobox 2 Neighboring gene Riken cDNA CJ186046 gene

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

General gene information

Markers

Other Names

  • Six3 antisense
  • Six3 opposite strand transcript 1

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

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.

RNA

  1. NR_015385.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) has an additional segment in one region and lacks a segment in another region, compared to variant 1.
    Source sequence(s)
    AC166821, AK053722, AY590889
  2. NR_015386.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an internal segment, compared to variant 1.
    Source sequence(s)
    AC166821, AK053722, AY589790
  3. NR_015387.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) has an additional exon in the 5' region and lacks 3' two exons but has a shorter and different 3' exon, compared to variant 1.
    Source sequence(s)
    AK053722, AY589791
  4. NR_038082.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) is the longest transcript.
    Source sequence(s)
    AC166821, AK053722, CF737515, CV783894
  5. NR_038083.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal segment, compared to variant 1.
    Source sequence(s)
    AC166821, AK053722
  6. NR_038084.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has an additional segment in one region and lacks a segment in another region, compared to variant 1.
    Source sequence(s)
    AC166821, AK053722, AY590888
  7. NR_038085.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) has an alternate and much shorter 3' exon, compared to variant 1.
    Source sequence(s)
    AK053722, BF461098, CF731326, CF737925
    Related
    ENSMUST00000161146.10
  8. NR_038086.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) lacks an internal segment, compared to variant 1.
    Source sequence(s)
    AC166821, AK053722, CA527570

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
    85909360..85925824 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)