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Sox2ot SOX2 overlapping transcript (non-protein coding) [ Mus musculus (house mouse) ]

Gene ID: 320478, updated on 8-Feb-2024

Summary

Official Symbol
Sox2otprovided by MGI
Official Full Name
SOX2 overlapping transcript (non-protein coding)provided by MGI
Primary source
MGI:MGI:2444112
See related
Ensembl:ENSMUSG00000105265 AllianceGenome:MGI:2444112
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
B230215L15Rik
Summary
Is expressed in several structures, including brain; lung; neural ectoderm; sensory organ; and testis. Orthologous to human SOX2-OT (SOX2 overlapping transcript). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in whole brain E14.5 (RPKM 8.2), frontal lobe adult (RPKM 8.1) and 6 other tissues See more
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Genomic context

See Sox2ot in Genome Data Viewer
Location:
3 A3; 3 16.56 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (34614530..34732142)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (34560381..34677993)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 38505 Neighboring gene VISTA enhancer mm1529 Neighboring gene predicted gene 20515 Neighboring gene predicted gene, 34599 Neighboring gene STARR-seq mESC enhancer starr_07369 Neighboring gene Sox2 5' regulatory region Neighboring gene microRNA 1897 Neighboring gene Sox2 SRR2 enhancer Neighboring gene SRR18 enhancer downstream of Sox2 Neighboring gene N-4 enhancer downstream of Sox2 Neighboring gene STARR-seq mESC enhancer starr_07376 Neighboring gene SRY (sex determining region Y)-box 2 Neighboring gene STARR-seq mESC enhancer starr_07377 Neighboring gene STARR-seq mESC enhancer starr_07378 Neighboring gene predicted gene, 34941 Neighboring gene predicted gene 3143

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)

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
 

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_015580.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC057611
    Related
    ENSMUST00000197977.6

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    34614530..34732142
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_177170.2: Suppressed sequence

    Description
    NM_177170.2: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.