Transcript: lnc-FAM84B-15:133

Basic information

LNCipedia transcript ID: lnc-FAM84B-15:133 
HGNC Gene Symbol: lnc-FAM84B-15    
HGNC Full Gene Name: cancer susceptibility 19
Ensembl Gene ID: ENSG00000254166
Ensembl Transcript ID: ENST00000523510
RefSeq ID: NR_119373
Location (hg19): chr8:128084939-128094466
Strand: -
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 575 bp
Exons: 4
Sources: Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Refseq - Dec 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: ENST00000523510; ENST00000523510.1; RP11-255B23.2-001; OTTHUMT00000381638.1; NONHSAT129016; NR_119373; NR_119373.1
Alternative gene names: ENSG00000253264; RP11-255B23.2; ENSG00000253264.1; OTTHUMG00000165062.1; PCAT2; ENSG00000254166.2; CASC19


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 -56.1691 non-coding 
CPAT coding probability 2.96% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
lnc-FAM84B-15:133 no no no no

Available literature

  1. Li (2016), Cancer RNA-Seq Nexus: a database of phenotype-specific transcriptome profiling in cancer cells., Nucleic Acids Res.
  2. Xie (2016), Long non-coding RNAs in colorectal cancer., Oncotarget
  3. Al-Tassan (2015), A new GWAS and meta-analysis with 1000Genomes imputation identifies novel risk variants for colorectal cancer., Sci Rep
  4. Cabanski (2015), Pan-cancer transcriptome analysis reveals long noncoding RNAs with conserved function., RNA Biol
  5. Deng (2015), Long noncoding RNA CCAT1 promotes hepatocellular carcinoma progression by functioning as let-7 sponge., J. Exp. Clin. Cancer Res.
  6. Hu (2015), Downregulation of NUF2 inhibits tumor growth and induces apoptosis by regulating lncRNA AF339813., Int J Clin Exp Pathol
  7. Kim (2015), MYC-repressed long noncoding RNAs antagonize MYC-induced cell proliferation and cell cycle progression., Oncotarget
  8. Ma (2015), Genetic variant in 8q24 is associated with prognosis for gastric cancer in a Chinese population., J. Gastroenterol. Hepatol.
  9. Ma (2015), Long non-coding RNA CCAT1 promotes gallbladder cancer development via negative modulation of miRNA-218-5p., Cell Death Dis
  10. Mizrahi (2015), Colon Cancer Associated Transcript-1 (CCAT1) Expression in Adenocarcinoma of the Stomach., J Cancer


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-FAM84B-4:2
3.1 lnc-FAM84B-4:2
4.0 lnc-TMEM75-3:20
4.1 lnc-TMEM75-3:20
5.0 lnc-TMEM75-3:20
5.1 lnc-FAM84B-15:108
5.2 lnc-FAM84B-15:133

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