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

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

    Summary

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    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

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Tibial fracture surgery in elderly mice caused postoperative neurocognitive disorder via SOX2OT lncRNA in the hippocampus. Xiao Z, et al. Mol Brain, 2023 Apr 25. PMID 37098623, Free PMC Article
    2. LncRNA SOX2OT alleviates mesangial cell proliferation and fibrosis in diabetic nephropathy via Akt/mTOR-mediated autophagy. Chen K, et al. Mol Med, 2021 Jul 8. PMID 34238205, Free PMC Article
    3. Knockdown of long non-coding RNA SOX2OT downregulates SOX2 to improve hippocampal neurogenesis and cognitive function in a mouse model of sepsis-associated encephalopathy. Yin J, et al. J Neuroinflammation, 2020 Oct 25. PMID 33100215, Free PMC Article
    4. LncRNA SOX2OT Mediates Mitochondrial Dysfunction in Septic Cardiomyopathy. Chen M, et al. DNA Cell Biol, 2019 Nov. PMID 31618067
    5. CRISPR/Cas9-mediated gene editing on Sox2ot promoter leads to its truncated expression and does not influence neural tube closure and embryonic development in mice. Li PY, et al. Biochem Biophys Res Commun, 2021 Oct 8. PMID 34403806

    See all (34) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Tibial fracture surgery in elderly mice caused postoperative neurocognitive disorder via SOX2OT lncRNA in the hippocampus.
      Title: Tibial fracture surgery in elderly mice caused postoperative neurocognitive disorder via SOX2OT lncRNA in the hippocampus.
    2. LncRNA SOX2OT alleviates mesangial cell proliferation and fibrosis in diabetic nephropathy via Akt/mTOR-mediated autophagy.
      Title: LncRNA SOX2OT alleviates mesangial cell proliferation and fibrosis in diabetic nephropathy via Akt/mTOR-mediated autophagy.
    3. LncRNA SOX2OT/Smad3 feedback loop promotes myocardial fibrosis in heart failure.
      Title: LncRNA SOX2OT/Smad3 feedback loop promotes myocardial fibrosis in heart failure.
    4. CRISPR/Cas9-mediated gene editing on Sox2ot promoter leads to its truncated expression and does not influence neural tube closure and embryonic development in mice.
      Title: CRISPR/Cas9-mediated gene editing on Sox2ot promoter leads to its truncated expression and does not influence neural tube closure and embryonic development in mice.
    5. Knockdown of long non-coding RNA SOX2OT downregulates SOX2 to improve hippocampal neurogenesis and cognitive function in a mouse model of sepsis-associated encephalopathy.
      Title: Knockdown of long non-coding RNA SOX2OT downregulates SOX2 to improve hippocampal neurogenesis and cognitive function in a mouse model of sepsis-associated encephalopathy.
    6. LncRNA Sox2ot modulates the progression of thoracic aortic aneurysm by regulating miR-330-5p/Myh11.
      Title: LncRNA Sox2ot modulates the progression of thoracic aortic aneurysm by regulating miR-330-5p/Myh11.
    7. In general, SOX2OT contributed to mitochondrial dysfunction progression via inhibiting SOX2 expression in septic cardiomyopathy, which may provide a new insight for treatment of septic cardiomyopathy.
      Title: LncRNA SOX2OT Mediates Mitochondrial Dysfunction in Septic Cardiomyopathy.
    8. Sox2ot forms a physical interaction with a multifunctional transcriptional regulator YY1, which binds several CpG islands in the Sox2 locus in a Sox2ot-dependent manner.
      Title: Long noncoding RNA Sox2ot and transcription factor YY1 co-regulate the differentiation of cortical neural progenitors by repressing Sox2.
    9. Data propose that during development Sox2ot expression is mainly restricted to neural cell types and that enhanced Sox2ot transcriptional activity negatively affects Sox2 RNA levels in an allele-specific manner.
      Title: Allele-specific repression of Sox2 through the long non-coding RNA Sox2ot.
    10. During development Sox2ot represses Sox2 in an allele-specific manner
      Title: Allele-specific repression of Sox2 through the long non-coding RNA Sox2ot.
    Submit: New GeneRIF Correction See all GeneRIFs (13)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    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.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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