Transcript: SOX2-OT:112

Basic information

LNCipedia transcript ID: SOX2-OT:112 
HGNC Gene Symbol: SOX2-OT    
HGNC Full Gene Name: SOX2 overlapping transcript
Ensembl Gene ID: ENSG00000242808
Ensembl Transcript ID: ENST00000490005
Location (hg38): chr3:181699598-181700100
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 383 bp
Exons: 2
Sources: Ensembl release 92 - Apr 2018
Alternative transcript names: ENST00000490005.2
Alternative gene names: ENSG00000242808.8; SOX2-OT


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites non-coding 
PhyloCSF score -32.0983 non-coding 
CPAT coding probability 1.66% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
SOX2-OT:112 no no no no

Available literature

  1. Iranpour (2016), Expression analysis of four long noncoding RNAs in breast cancer., Tumour Biol.
  2. Shi (2015), Up-regulation of long non-coding RNA Sox2ot promotes hepatocellular carcinoma cell metastasis and correlates with poor prognosis., Int J Clin Exp Pathol
  3. Wang (2015), Identification of lncRNA-associated competing triplets reveals global patterns and prognostic markers for cancer., Nucleic Acids Res.
  4. Wang (2015), Genome-scale long noncoding RNA expression pattern in squamous cell lung cancer., Sci Rep
  5. Askarian-Amiri (2014), Emerging role of long non-coding RNA SOX2OT in SOX2 regulation in breast cancer., PLoS ONE
  6. Chaudhry (2014), Small nucleolar RNA host genes and long non-coding RNA responses in directly irradiated and bystander cells., Cancer Biother. Radiopharm.
  7. Hou (2014), A long noncoding RNA Sox2ot regulates lung cancer cell proliferation and is a prognostic indicator of poor survival., Int. J. Biochem. Cell Biol.
  8. Shahryari (2014), Two novel splice variants of SOX2OT, SOX2OT-S1, and SOX2OT-S2 are coupregulated with SOX2 and OCT4 in esophageal squamous cell carcinoma., Stem Cells
  9. Zhao (2014), Expression profiles and initial confirmation of long noncoding RNAs in Chinese patients with pulmonary adenocarcinoma., Onco Targets Ther
  10. Chaudhry (2013), Expression pattern of small nucleolar RNA host genes and long non-coding RNA in X-rays-treated lymphoblastoid cells., Int J Mol Sci
  11. Qureshi (2012), Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease., Nat. Rev. Neurosci.
  12. Amaral (2009), Complex architecture and regulated expression of the Sox2ot locus during vertebrate development., RNA
  13. Fantes (2003), Mutations in SOX2 cause anophthalmia., Nat. Genet.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
5.0 SOX2-OT:112
5.1 SOX2-OT:112
5.2 SOX2-OT:112