Transcript: PCAT1:67

Basic information

LNCipedia transcript ID: PCAT1:67 
LNCipedia gene ID: PCAT1
RefSeq ID: NR_117099
Location (hg19): chr8:128256882-128404876
Strand: +
Class: intronic
Sequence Ontology term: sense_intronic_ncRNA
Transcript size: 585 bp
Exons: 4
Sources: Refseq - Dec 2014; Refseq - NCBI Annotation Release 106
Alternative transcript names: NR_117099; NR_117099.1
Alternative gene names: CARLo-2; CASC21


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites non-coding 
PhyloCSF score -2.6314 non-coding 
CPAT coding probability 3.26% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
PCAT1:67 no no no no

Available literature

  1. Xie (2016), Long non-coding RNAs in colorectal cancer., Oncotarget
  2. Kim (2015), Genome-wide transcript profiling reveals novel breast cancer-associated intronic sense RNAs., PLoS ONE
  3. Liu (2015), Inducing cell growth arrest and apoptosis by silencing long non-coding RNA PCAT-1 in human bladder cancer., Tumour Biol.
  4. Rupaimoole (2015), Long Noncoding RNA Ceruloplasmin Promotes Cancer Growth by Altering Glycolysis., Cell Rep
  5. Shi (2015), Upregulation of the long noncoding RNA PCAT-1 correlates with advanced clinical stage and poor prognosis in esophageal squamous carcinoma., Tumour Biol.
  6. Shih (2015), Non-Coding RNAs in Castration-Resistant Prostate Cancer: Regulation of Androgen Receptor Signaling and Cancer Metabolism., Int J Mol Sci
  7. Sugihara (2015), Noncoding RNA Expression Aberration Is Associated with Cancer Progression and Is a Potential Biomarker in Esophageal Squamous Cell Carcinoma., Int J Mol Sci
  8. Tantai (2015), Combined identification of long non-coding RNA XIST and HIF1A-AS1 in serum as an effective screening for non-small cell lung cancer., Int J Clin Exp Pathol
  9. Wang (2015), Upregulated lncRNA-UCA1 contributes to progression of lung cancer and is closely related to clinical diagnosis as a predictive biomarker in plasma., Int J Clin Exp Med
  10. Yan (2015), Prognostic significance of long non-coding RNA PCAT-1 expression in human hepatocellular carcinoma., Int J Clin Exp Pathol
  11. Athie (2014), FAL1ing inside an amplicon., Cancer Cell
  12. Hu (2014), A functional genomic approach identifies FAL1 as an oncogenic long noncoding RNA that associates with BMI1 and represses p21 expression in cancer., Cancer Cell
  13. Mehra (2014), A novel RNA in situ hybridization assay for the long noncoding RNA SChLAP1 predicts poor clinical outcome after radical prostatectomy in clinically localized prostate cancer., Neoplasia
  14. Ning (2014), LincSNP: a database of linking disease-associated SNPs to human large intergenic non-coding RNAs., BMC Bioinformatics
  15. Prensner (2014), PCAT-1, a long noncoding RNA, regulates BRCA2 and controls homologous recombination in cancer., Cancer Res.
  16. Prensner (2014), The long non-coding RNA PCAT-1 promotes prostate cancer cell proliferation through cMyc., Neoplasia
  17. Su (2014), Comprehensive analysis of long non-coding RNAs in human breast cancer clinical subtypes., Oncotarget
  18. Walsh (2014), Long noncoding RNAs and prostate carcinogenesis: the missing 'linc'?, Trends Mol Med
  19. Xu (2014), Long non-coding RNA LSINCT5 predicts negative prognosis and exhibits oncogenic activity in gastric cancer., Medicine (Baltimore)
  20. Cao (2013), Integrated analysis of long noncoding RNA and coding RNA expression in esophageal squamous cell carcinoma., Int J Genomics
  21. Du (2013), Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer., Nat. Struct. Mol. Biol.
  22. Ge (2013), Overexpression of long noncoding RNA PCAT-1 is a novel biomarker of poor prognosis in patients with colorectal cancer., Med. Oncol.
  23. Kapusta (2013), Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs., PLoS Genet.
  24. Prensner (2013), The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex., Nat. Genet.
  25. Kelley (2012), Transposable elements reveal a stem cell-specific class of long noncoding RNAs., Genome Biol.
  26. Prensner (2011), Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression., Nat. Biotechnol.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
3.1 lnc-POU5F1B-1:2
4.0 CASC21:1
4.1 CASC21:1
5.0 CASC21:1
5.1 PCAT1:43
5.2 PCAT1:67