Transcript: CASC22:16

Basic information

LNCipedia transcript ID: CASC22:16 
HGNC Gene Symbol: CASC22    
HGNC Full Gene Name: cancer susceptibility 22
Ensembl Gene ID: ENSG00000260887
Ensembl Transcript ID: ENST00000569713
RefSeq ID: NR_135281
Location (hg19): chr16:52292476-52314211
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 386 bp
Exons: 3
Sources: 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; Refseq - NCBI Annotation Release 106
Alternative transcript names: ENST00000569713.1; RP11-142G1.2-001; OTTHUMT00000422569.1; NONHSAT142513; NR_135281.1
Alternative gene names: ENSG00000260887.1; RP11-142G1.2; OTTHUMG00000173239.1; ENSG00000260887.2; CASC22


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 -177.5986 non-coding 
CPAT coding probability 4.16% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
CASC22:16 no no no no

Available literature

  1. Li (2014), A polymorphism rs12325489C>T in the lincRNA-ENST00000515084 exon was found to modulate breast cancer risk via GWAS-based association analyses., PLoS ONE


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
3.1 lnc-CHD9-5:1
4.0 lnc-CHD9-5:1
4.1 lnc-CHD9-5:1
5.0 lnc-CHD9-5:1
5.1 CASC22:2
5.2 CASC22:16