Transcript: SOX1-OT:20

Basic information

LNCipedia transcript ID: SOX1-OT:20 
LNCipedia gene ID: SOX1-OT
Location (hg19): chr13:112749810-112762201
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 471 bp
Exons: 3
Sources: Broad Institute
Alternative transcript names: TCONS_00021911
Alternative gene names: XLOC_010504; linc-C13orf28-4;


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites 0 non-coding 
PhyloCSF score -211.5037 non-coding 
CPAT coding probability 3.69% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
SOX1-OT:20 no no no no

Available literature

  1. Ahmad (2017), Expression of a SOX1 overlapping transcript in neural differentiation and cancer models., Cell. Mol. Life Sci.
  2. Bannon (2015), Identification of long noncoding RNAs dysregulated in the midbrain of human cocaine abusers., J. Neurochem.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-SOX1-1:1
3.1 lnc-SOX1-2:1
4.0 LINC00403:2
4.1 LINC00403:2
5.0 LINC00403:2
5.1 SOX1-OT:10
5.2 SOX1-OT:20