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Aliases for SOX2-OT Gene

Subcategory (RNA class) for SOX2-OT Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for SOX2-OT Gene

  • SOX2 Overlapping Transcript 2 3 5
  • SOX2 Overlapping Transcript (Non-Protein Coding) 2 3
  • SOX2 Overlapping Transcript (Non-Coding RNA) 3
  • Non-Protein Coding RNA 43 2
  • NCRNA00043 3
  • SOX2OT 3

External Ids for SOX2-OT Gene

Previous HGNC Symbols for SOX2-OT Gene

  • SOX2OT

Previous GeneCards Identifiers for SOX2-OT Gene

  • GC03P181328
  • GC03P180723

Summaries for SOX2-OT Gene

GeneCards Summary for SOX2-OT Gene

SOX2-OT (SOX2 Overlapping Transcript) is an RNA Gene, and is affiliated with the non-coding RNA class.

Gene Wiki entry for SOX2-OT Gene

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SOX2-OT Gene

Genomics for SOX2-OT Gene

Regulatory Elements for SOX2-OT Gene

Promoters for SOX2-OT Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SOX2-OT on UCSC Golden Path with GeneCards custom track

Genomic Location for SOX2-OT Gene

Chromosome:
3
Start:
180,989,770 bp from pter
End:
181,836,880 bp from pter
Size:
847,111 bases
Orientation:
Plus strand

Genomic View for SOX2-OT Gene

Genes around SOX2-OT on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SOX2-OT Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SOX2-OT Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SOX2-OT Gene

Proteins for SOX2-OT Gene

Post-translational modifications for SOX2-OT Gene

No Post-translational modifications

No data available for DME Specific Peptides for SOX2-OT Gene

Domains & Families for SOX2-OT Gene

Gene Families for SOX2-OT Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SOX2-OT: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for SOX2-OT Gene

Function for SOX2-OT Gene

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SOX2-OT Gene

Localization for SOX2-OT Gene

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for SOX2-OT Gene

Pathways & Interactions for SOX2-OT Gene

SuperPathways for SOX2-OT Gene

No Data Available

Interacting Proteins for SOX2-OT Gene

Gene Ontology (GO) - Biological Process for SOX2-OT Gene

None

No data available for Pathways by source and SIGNOR curated interactions for SOX2-OT Gene

Drugs & Compounds for SOX2-OT Gene

No Compound Related Data Available

Transcripts for SOX2-OT Gene

Unigene Clusters for SOX2-OT Gene

SOX2 overlapping transcript (non-protein coding):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SOX2-OT Gene

No ASD Table

Relevant External Links for SOX2-OT Gene

GeneLoc Exon Structure for
SOX2-OT
ECgene alternative splicing isoforms for
SOX2-OT

Expression for SOX2-OT Gene

mRNA expression in normal human tissues for SOX2-OT Gene

mRNA differential expression in normal tissues according to GTEx for SOX2-OT Gene

This gene is overexpressed in Brain - Spinal cord (cervical c-1) (x11.5), Brain - Substantia nigra (x7.2), Brain - Hippocampus (x5.7), Brain - Amygdala (x5.0), and Brain - Putamen (basal ganglia) (x4.6).

SOURCE GeneReport for Unigene cluster for SOX2-OT Gene Hs.654932

genes like me logo Genes that share expression patterns with SOX2-OT: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for SOX2-OT Gene

Orthologs for SOX2-OT Gene

Evolution for SOX2-OT Gene

ENSEMBL:
Gene Tree for SOX2-OT (if available)
TreeFam:
Gene Tree for SOX2-OT (if available)

No data available for Orthologs for SOX2-OT Gene

Paralogs for SOX2-OT Gene

No data available for Paralogs for SOX2-OT Gene

Variants for SOX2-OT Gene

Sequence variations from dbSNP and Humsavar for SOX2-OT Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs939041 -- 181,268,368(+) CCAGA(A/G)ACTGA intron-variant
rs918253 -- 181,112,549(+) ATCCT(C/T)ATGGA intron-variant
rs746058 -- 181,512,045(+) CAGAA(G/T)TGATA intron-variant
rs766100 -- 181,507,958(-) ATATT(C/T)AAAGA intron-variant
rs1013675 -- 181,445,987(-) GAAAA(A/G)CCATA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SOX2-OT Gene

Variant ID Type Subtype PubMed ID
esv2658568 CNV Deletion 23128226
nsv878042 CNV Gain 21882294

Relevant External Links for SOX2-OT Gene

HapMap Linkage Disequilibrium report
SOX2-OT

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for SOX2-OT Gene

Disorders for SOX2-OT Gene

Relevant External Links for SOX2-OT

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SOX2-OT

No disorders were found for SOX2-OT Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SOX2-OT Gene

Publications for SOX2-OT Gene

  1. Complex architecture and regulated expression of the Sox2ot locus during vertebrate development. (PMID: 19767420) Amaral P.P. … Mattick J.S. (RNA 2009) 2 3 23 67
  2. Mutations in SOX2 cause anophthalmia. (PMID: 12612584) Fantes J. … FitzPatrick D.R. (Nat. Genet. 2003) 2 3
  3. Biological insights from 108 schizophrenia-associated genetic loci. (PMID: 25056061) (Nature 2014) 3
  4. A long noncoding RNA Sox2ot regulates lung cancer cell proliferation and is a prognostic indicator of poor survival. (PMID: 24927902) Hou Z. … Yan J. (Int. J. Biochem. Cell Biol. 2014) 3
  5. A genome-wide association study of anorexia nervosa. (PMID: 24514567) Boraska V. … Bulik C.M. (Mol. Psychiatry 2014) 3

Products for SOX2-OT Gene

Sources for SOX2-OT Gene

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