Transcript: lnc-SHOX2-1:1

Basic information

LNCipedia transcript ID: lnc-SHOX2-1:1 
LNCipedia gene ID: lnc-SHOX2-1
Ensembl Gene ID: ENSG00000242536
Ensembl Transcript ID: ENST00000498241
Location (hg38): chr3:158016371-158088997
Strand: -
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 393 bp
Exons: 3
Sources: Broad Institute; Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Ensembl release 83 - Dec 2015; Ensembl release 87 - Dec 2016; Ensembl release 90 - Aug 2017; Ensembl release 92 - Apr 2018
Alternative transcript names: TCONS_00005862; ENST00000498241; ENST00000498241.1; RP11-290K4.2-001; OTTHUMT00000352061.1; NONHSAT092921
Alternative gene names: XLOC_003305; linc-VEPH1-2; ENSG00000242536; RP11-290K4.2; ENSG00000242536.1; OTTHUMG00000158757.1; AC079943.2


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 -227.4251 non-coding 
CPAT coding probability 0.88% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
lnc-SHOX2-1:1 no no no no

Available literature

No linked literature available at this time.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-SHOX2-1:1
3.1 lnc-SHOX2-1:1
4.0 lnc-SHOX2-1:1
4.1 lnc-SHOX2-1:1
5.0 lnc-SHOX2-1:1
5.1 lnc-SHOX2-1:1
5.2 lnc-SHOX2-1:1