Transcript: GACAT1:3

Basic information

LNCipedia transcript ID: GACAT1:3 
HGNC Gene Symbol: GACAT1    
HGNC Full Gene Name: gastric cancer associated transcript 1
Ensembl Gene ID: ENSG00000232991
Ensembl Transcript ID: ENST00000419650
Location (hg38): chr2:107754145-107812348
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 577 bp
Exons: 4
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_00002975; ENST00000419650; ENST00000419650.1; AC096655.1-002; OTTHUMT00000330679.1; NONHSAT073073
Alternative gene names: XLOC_001620; linc-RGPD4-1; ENSG00000232991; AC096655.1; ENSG00000232991.1; OTTHUMG00000153313.1; GACAT1; ENSG00000232991.5; LINC00876; AC096655.1-002


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 -160.9049 non-coding 
CPAT coding probability 0.76% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
GACAT1:3 no no no no

Available literature

  1. Li (2014), Non-coding RNAs and gastric cancer., World J. Gastroenterol.
  2. Xia (2014), Long noncoding RNA associated-competing endogenous RNAs in gastric cancer., Sci Rep
  3. Sun (2013), Decreased expression of long noncoding RNA AC096655.1-002 in gastric cancer and its clinical significance., Tumour Biol.
  4. Xiao (2013), Long noncoding RNA AC096655.1-002 has been officially named as gastric cancer-associated transcript 1, GACAT1., Tumour Biol.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-RGPD4-1:2
3.1 lnc-RGPD4-1:2
4.0 GACAT1:3
4.1 GACAT1:3
5.0 GACAT1:3
5.1 GACAT1:3
5.2 GACAT1:3