Transcript: HCG9:1

Basic information

LNCipedia transcript ID: HCG9:1 
LNCipedia gene ID: HCG9
Location (hg38): chr6:29975112-29978406
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 659 bp
Exons: 3
Sources: Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014
Alternative transcript names: ENST00000376800; ENST00000376800.3; HCG9-001; OTTHUMT00000076199.4; NONHSAT108571
Alternative gene names: ENSG00000204625; HCG9; ENSG00000204625.6; OTTHUMG00000031119.4; PERB11; HCGIX; HCGIX4; HCGIX-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 -6.5089 non-coding 
CPAT coding probability 16.73% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
HCG9:1 no no no no

Available literature

  1. Hampe (1999), A 356-Kb sequence of the subtelomeric part of the MHC Class I region., DNA Seq.
  2. Shiina (1999), Molecular dynamics of MHC genesis unraveled by sequence analysis of the 1,796,938-bp HLA class I region., Proc. Natl. Acad. Sci. U.S.A.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-HLA-A-1:1
3.1 lnc-HLA-A-1:1
4.0 HCG9:1
4.1 HCG9:1
5.0 HCG9:1
5.1 HCG9:1
5.2 HCG9:1