Transcript: lnc-FOXB2-9:2

Basic information

LNCipedia transcript ID: lnc-FOXB2-9:2 
LNCipedia gene ID: lnc-FOXB2-9
RefSeq ID: NR_132313
Location (hg38): chr9:76764436-76787569
Strand: +
Class: antisense
Sequence Ontology term: antisense_lncRNA
Transcript size: 3622 bp
Exons: 3
Sources: Refseq - NCBI Annotation Release 106
Alternative transcript names: NR_132313.1
Alternative gene names: PCA3


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 -28.39 non-coding 
CPAT coding probability 1.39% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: yes

Locus conservation

Locus conservation?
lnc-FOXB2-9:2 yes no no no

Available literature

  1. Neveu (2016), A PCA3 gene-based transcriptional amplification system targeting primary prostate cancer., Oncotarget
  2. Drayton (2015), Identification and diagnostic performance of a small RNA within the PCA3 and BMCC1 gene locus that potentially targets mRNA., Cancer Epidemiol. Biomarkers Prev.
  3. Gui (2015), Altered microRNA profiles in cerebrospinal fluid exosome in Parkinson disease and Alzheimer disease., Oncotarget
  4. Iyer (2015), The landscape of long noncoding RNAs in the human transcriptome., Nat. Genet.
  5. Jiang (2015), LncRNA2Function: a comprehensive resource for functional investigation of human lncRNAs based on RNA-seq data., BMC Genomics
  6. Liu (2015), Construction of a lncRNA-PCG bipartite network and identification of cancer-related lncRNAs: a case study in prostate cancer., Mol Biosyst
  7. Liu (2015), Carboplatin-docetaxel-induced activity against ovarian cancer is dependent on up-regulated lncRNA PVT1., Int J Clin Exp Pathol
  8. Marangoni (2015), Prostate-specific RNA aptamer: promising nucleic acid antibody-like cancer detection., Sci Rep
  9. Salameh (2015), PRUNE2 is a human prostate cancer suppressor regulated by the intronic long noncoding RNA PCA3., Proc. Natl. Acad. Sci. U.S.A.
  10. Silva (2015), The Clinical Relevance of Long Non-Coding RNAs in Cancer., Cancers (Basel)
  11. Sun (2015), High-throughput long noncoding RNA profiling for diagnostic and prognostic markers in cancer: opportunities and challenges., Epigenomics
  12. 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
  13. 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
  14. Wang (2015), Serum LncRNAs Profiles Serve as Novel Potential Biomarkers for the Diagnosis of HBV-Positive Hepatocellular Carcinoma., PLoS ONE
  15. Zhang (2015), A novel urinary long non-coding RNA transcript improves diagnostic accuracy in patients undergoing prostate biopsy., Prostate
  16. Cogill (2014), Co-expression Network Analysis of Human lncRNAs and Cancer Genes., Cancer Inform
  17. Hu (2014), Identification of prostate cancer LncRNAs by RNA-Seq., Asian Pac. J. Cancer Prev.
  18. Kumarswamy (2014), Circulating long noncoding RNA, LIPCAR, predicts survival in patients with heart failure., Circ. Res.
  19. 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
  20. Pickl (2014), Novel RNA markers in prostate cancer: functional considerations and clinical translation., Biomed Res Int
  21. Prensner (2014), RNA biomarkers associated with metastatic progression in prostate cancer: a multi-institutional high-throughput analysis of SChLAP1., Lancet Oncol.
  22. Su (2014), Comprehensive analysis of long non-coding RNAs in human breast cancer clinical subtypes., Oncotarget
  23. Walsh (2014), Long noncoding RNAs and prostate carcinogenesis: the missing 'linc'?, Trends Mol Med
  24. Wang (2014), Development and prospective multicenter evaluation of the long noncoding RNA MALAT-1 as a diagnostic urinary biomarker for prostate cancer., Oncotarget
  25. Zhou (2014), Long noncoding RNA PCA3 gene promoter region is related to the risk of prostate cancer on Chinese males., Exp. Mol. Pathol.
  26. Chen (2013), LncRNADisease: a database for long-non-coding RNA-associated diseases., Nucleic Acids Res.
  27. Du (2013), Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer., Nat. Struct. Mol. Biol.
  28. Qiu (2013), Long noncoding RNA: an emerging paradigm of cancer research., Tumour Biol.
  29. Weber (2013), Evaluation of long noncoding RNA MALAT1 as a candidate blood-based biomarker for the diagnosis of non-small cell lung cancer., BMC Res Notes
  30. Wu (2013), A genetic polymorphism in lincRNA-uc003opf.1 is associated with susceptibility to esophageal squamous cell carcinoma in Chinese populations., Carcinogenesis
  31. Ferreira (2012), PCA3 noncoding RNA is involved in the control of prostate-cancer cell survival and modulates androgen receptor signaling., BMC Cancer
  32. Tahira (2011), Long noncoding intronic RNAs are differentially expressed in primary and metastatic pancreatic cancer., Mol. Cancer
  33. Bussemakers (1999), DD3: a new prostate-specific gene, highly overexpressed in prostate cancer., Cancer Res.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
5.0 PCA3:16
5.1 lnc-ANXA1-61:2
5.2 lnc-FOXB2-9:2