Transcript: PVT1:23

Basic information

LNCipedia transcript ID: PVT1:23 ?
HGNC Gene Symbol: PVT1    ?
HGNC Full Gene Name: Pvt1 oncogene (non-protein coding)
Location (hg19): chr8:128902874-129113499
Strand: +
Class: intergenic
Transcript size: 1699 bp
Exons: 8
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
Alternative transcript names: ENST00000513868; ENST00000513868.2; PVT1-004; OTTHUMT00000380704.1; NONHSAT129063; NR_003367; ENST00000513868.6
Alternative gene names: ENSG00000249859; PVT1; ENSG00000249859.2; OTTHUMG00000164871.1; ENSG00000249859.3; ENSG00000249859.7; NCRNA00079; LINC00079; onco-lncRNA-100; ENSG00000249859.8

RNA sequence:


Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding ?
Lee translation initiation sites 0 non-coding ?
Highest peak:0
PhyloCSF score 13.6927 non-coding ?
CPAT coding probability 5.29% non-coding ?
Bazzini small ORFs 0 non-coding ?
In stringent set: yes

Locus conservation

Locus conservation?
PVT1:23 no no

Secondary structure information

RNAfold image: download
Randfold minimum free energy: -582.79
Randfold P-value: 0.084

Targetting miRNAs

MirTarget2 predictions:
MicroRNAMirTarget2 score ?
hsa-miR-519e-5p 76.81
hsa-miR-515-5p 76.06
hsa-miR-92a-2-5p 75.04
hsa-miR-505-5p 73.73
hsa-miR-3155a 71.41
hsa-miR-497-3p 65.17
hsa-miR-513c-5p 64.89
hsa-miR-3155b 64.15
hsa-miR-508-5p 63.42
hsa-miR-514b-5p 63.41
hsa-miR-193a-5p 60.44
hsa-miR-766-3p 58.45
hsa-miR-4733-3p 57.36
hsa-miR-4770 56.68
hsa-miR-4796-5p 56.43
hsa-miR-1825 56.28
hsa-miR-143-3p 55.38
hsa-miR-3157-5p 55.31
hsa-miR-3151 54.94
hsa-miR-449c-5p 53.93
hsa-miR-4756-3p 52.07
hsa-miR-34b-5p 51.05
hsa-miR-455-5p 51.04
hsa-miR-4656 51.04
hsa-miR-2682-5p 50.92
hsa-miR-24-3p 50.00
hsa-miR-378h 50.00
hsa-miR-422a 50.00

Available literature

  1. Austin (2016), Transcriptional profiling identifies the long noncoding RNA plasmacytoma variant translocation (PVT1) as a novel regulator of the asthmatic phenotype in human airway smooth muscle., The Journal of allergy and clinical immunology
  2. Cui (2016), Long non-coding RNA PVT1 as a novel biomarker for diagnosis and prognosis of non-small cell lung cancer., Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine
  3. Li (2016), Cancer RNA-Seq Nexus: a database of phenotype-specific transcriptome profiling in cancer cells., Nucleic acids research
  4. Alaimo (2015), ncPred: ncRNA-Disease Association Prediction through Tripartite Network-Based Inference., Frontiers in bioengineering and biotechnology
  5. Cabanski (2015), Pan-cancer transcriptome analysis reveals long noncoding RNAs with conserved function., RNA biology
  6. Chinen (2015), 8q24 amplified segments involve novel fusion genes between NSMCE2 and long noncoding RNAs in acute myelogenous leukemia., Journal of hematology & oncology
  7. Colombo (2015), PVT1: a rising star among oncogenic long noncoding RNAs., BioMed research international
  8. Ding (2015), Long non-coding RNA PVT1 is associated with tumor progression and predicts recurrence in hepatocellular carcinoma patients., Oncology letters
  9. Guo (2015), Competing endogenous RNA networks and gastric cancer., World journal of gastroenterology
  10. Huang (2015), Increased expression of the lncRNA PVT1 is associated with poor prognosis in pancreatic cancer patients., Minerva medica
  11. Kim (2015), MYC-repressed long noncoding RNAs antagonize MYC-induced cell proliferation and cell cycle progression., Oncotarget
  12. Kong (2015), Long noncoding RNA PVT1 indicates a poor prognosis of gastric cancer and promotes cell proliferation through epigenetically regulating p15 and p16., Molecular cancer
  13. Li (2015), Discovery of Protein-lncRNA Interactions by Integrating Large-Scale CLIP-Seq and RNA-Seq Datasets., Frontiers in bioengineering and biotechnology
  14. Liu (2015), Carboplatin-docetaxel-induced activity against ovarian cancer is dependent on up-regulated lncRNA PVT1., International journal of clinical and experimental pathology
  15. Na (2015), Long non-coding RNA UCA1 contributes to the progression of prostate cancer and regulates proliferation through KLF4-KRT6/13 signaling pathway., International journal of clinical and experimental medicine
  16. Pei (2015), Notch-1 promotes breast cancer cells proliferation by regulating LncRNA GAS5., International journal of clinical and experimental medicine
  17. Ragusa (2015), Non-coding landscapes of colorectal cancer., World journal of gastroenterology
  18. Shih (2015), Non-Coding RNAs in Castration-Resistant Prostate Cancer: Regulation of Androgen Receptor Signaling and Cancer Metabolism., International journal of molecular sciences
  19. 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., International journal of clinical and experimental pathology
  20. Wei (2015), Transcriptome profiling of esophageal squamous cell carcinoma reveals a long noncoding RNA acting as a tumor suppressor., Oncotarget
  21. Xue (2015), Decreased expression of long non-coding RNA NBAT-1 is associated with poor prognosis in patients with clear cell renal cell carcinoma., International journal of clinical and experimental pathology
  22. Younger (2015), Integrative genomic analysis reveals widespread enhancer regulation by p53 in response to DNA damage., Nucleic acids research
  23. Yu (2015), Cardiac hypertrophy is positively regulated by long non-coding RNA PVT1., International journal of clinical and experimental pathology
  24. Zeng (2015), Overexpression of the long non-coding RNA PVT1 is correlated with leukemic cell proliferation in acute promyelocytic leukemia., Journal of hematology & oncology
  25. Zhang (2015), Overexpression of long non-coding RNA PVT1 in gastric cancer cells promotes the development of multidrug resistance., Biochemical and biophysical research communications
  26. Zhang (2015), Cancer Specific Long Noncoding RNAs Show Differential Expression Patterns and Competing Endogenous RNA Potential in Hepatocellular Carcinoma., PloS one
  27. Zhou (2015), Identification of the long non-coding RNA H19 in plasma as a novel biomarker for diagnosis of gastric cancer., Scientific reports
  28. Zhou (2015), Long noncoding RNA PVT1 modulates thyroid cancer cell proliferation by recruiting EZH2 and regulating thyroid-stimulating hormone receptor (TSHR)., Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine
  29. Zhuang (2015), Tetracycline-inducible shRNA targeting long non-coding RNA PVT1 inhibits cell growth and induces apoptosis in bladder cancer cells., Oncotarget
  30. Athie (2014), FAL1ing inside an amplicon., Cancer cell
  31. Ding (2014), Expression and clinical significance of the long non-coding RNA PVT1 in human gastric cancer., OncoTargets and therapy
  32. Dryden (2014), Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C., Genome research
  33. Garzon (2014), Expression and prognostic impact of lncRNAs in acute myeloid leukemia., Proceedings of the National Academy of Sciences of the United States of America
  34. Johnsson (2014), Expanding the functional role of long noncoding RNAs., Cell research
  35. Kim (2014), Novel fusion transcripts in human gastric cancer revealed by transcriptome analysis., Oncogene
  36. Malouf (2014), Characterization of long non-coding RNA transcriptome in clear-cell renal cell carcinoma by next-generation deep sequencing., Molecular oncology
  37. Paci (2014), Computational analysis identifies a sponge interaction network between long non-coding RNAs and messenger RNAs in human breast cancer., BMC systems biology
  38. Perry (2014), Role of non-coding RNAs in maintaining primary airway smooth muscle cells., Respiratory research
  39. Su (2014), Comprehensive analysis of long non-coding RNAs in human breast cancer clinical subtypes., Oncotarget
  40. Takahashi (2014), Amplification of PVT-1 is involved in poor prognosis via apoptosis inhibition in colorectal cancers., British journal of cancer
  41. Tseng (2014), PVT1 dependence in cancer with MYC copy-number increase., Nature
  42. Wan (2014), Noncoding RNAs in DNA repair and genome integrity., Antioxidants & redox signaling
  43. Wang (2014), Oncofetal Long Noncoding RNA PVT1 promotes proliferation and stem cell-like property of hepatocellular carcinoma cells by stabilizing NOP2., Hepatology (Baltimore, Md.)
  44. Wang (2014), Characteristics of PVT1 and its roles in diseases., Chinese medical sciences journal = Chung-kuo i hsüeh k'o hsüeh tsa chih / Chinese Academy of Medical Sciences
  45. Yang (2014), A network based method for analysis of lncRNA-disease associations and prediction of lncRNAs implicated in diseases., PloS one
  46. Yang (2014), Increased expression of the lncRNA PVT1 promotes tumorigenesis in non-small cell lung cancer., International journal of clinical and experimental pathology
  47. Zhang (2014), Frequent mutation of rs13281615 and its association with PVT1 expression and cell proliferation in breast cancer., Journal of genetics and genomics = Yi chuan xue bao
  48. Alvarez (2013), Role of microRNA 1207-5P and its host gene, the long non-coding RNA Pvt1, as mediators of extracellular matrix accumulation in the kidney: implications for diabetic nephropathy., PloS one
  49. Bisio (2013), Identification of new p53 target microRNAs by bioinformatics and functional analysis., BMC cancer
  50. Cao (2013), Analysis of long non-coding RNA expression profiles in gastric cancer., World journal of gastroenterology
  51. Du (2013), Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer., Nature structural & molecular biology
  52. Alvarez (2011), Functional characterization of the plasmacytoma variant translocation 1 gene (PVT1) in diabetic nephropathy., PloS one
  53. You (2011), Genome-wide screen identifies PVT1 as a regulator of Gemcitabine sensitivity in human pancreatic cancer cells., Biochemical and biophysical research communications

LNCipedia transcript ID history

LNCipedia version Deprecated transcript ID
3.1 lnc-MYC-2:14
4.0 PVT1:23
1.3 lnc-MYC-2:14