Transcript: lnc-HLA-DQA2-1:3

Basic information

LNCipedia transcript ID: lnc-HLA-DQA2-1:3 
LNCipedia gene ID: lnc-HLA-DQA2-1
Ensembl Gene ID: ENSG00000232080
Ensembl Transcript ID: ENST00000458375
Location (hg19): chr6:32686162-32686612
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 302 bp
Exons: 2
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_00011293; ENST00000458375; ENST00000458375.1; XXbac-BPG254F23.7-003; OTTHUMT00000276170.1; NONHSAT108930
Alternative gene names: XLOC_005258; linc-HLA-DQA2; ENSG00000232080; XXbac-BPG254F23.7; ENSG00000232080.1; OTTHUMG00000140119.1; ENSG00000232080.3; ENSG00000232080.5; AL662789.1


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 40.5907 non-coding 
CPAT coding probability 12.38% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
lnc-HLA-DQA2-1:3 no no no no

Available literature

  1. Ning (2014), LincSNP: a database of linking disease-associated SNPs to human large intergenic non-coding RNAs., BMC Bioinformatics


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-HLA-DQA2-1:3
3.1 lnc-HLA-DQA2-1:3
4.0 lnc-HLA-DQA2-1:3
4.1 lnc-HLA-DQA2-1:3
5.0 lnc-HLA-DQA2-1:3
5.1 lnc-TNF-73:7
5.2 lnc-HLA-DQA2-1:3