This gene represents a long non-coding RNA locus that has been identified as a candidate oncogene. Increased copy number and overexpression of this gene are associated with many types of cancers including breast and ovarian cancers, acute myeloid leukemia and Hodgkin lymphoma. Allelic variants of this gene are also associated with end-stage renal disease attributed to type 1 di... See more...

Aliases for PVT1 Gene

Subcategory (RNA class) for PVT1 Gene


Quality Score for this RNA gene is


Aliases for PVT1 Gene

  • Pvt1 Oncogene 2 3 5
  • Pvt-1 (Murine) Oncogene Homolog, MYC Activator 2 3
  • Long Intergenic Non-Protein Coding RNA 79 2 3
  • Pvt1 Oncogene (Non-Protein Coding) 2 3
  • PVT1 2 170
  • MIR1204, MIR1205, MIR1206 And MIR1207 Host Gene 2
  • MIR1204, MIR1205, MIR1206 And MIR1207 Host 3
  • Plasmacytoma Variant Translocation 1 3
  • Oncogene PVT-1 (MYC Activator) 3
  • Pvt1 Oncogene Homolog (Mouse) 2
  • Non-Protein Coding RNA 79 2
  • RP11-89K10/PVT1 Fusion 3
  • HIST1H2BD/PVT1 Fusion 3
  • PVT1/LINC00824 Fusion 3
  • PVT1/IRF2BP2 Fusion 3
  • PVT1/CCDC26 Fusion 3
  • PVT1/NSMCE2 Fusion 3
  • CXCR4/PVT1 Fusion 3
  • PVT1/CASC8 Fusion 3
  • PVT1/IFRD1 Fusion 3
  • PVT1/NFIL3 Fusion 3
  • PVT1/SPRY2 Fusion 3
  • PVT1/MYC Fusion 3
  • PVT1/UBB Fusion 3
  • Onco-LncRNA-100 3
  • HSALNG0068477 169
  • NONHSAG051258 94
  • NCRNA00079 3
  • LINC00079 3
  • MIR1204HG 3

External Ids for PVT1 Gene

Previous GeneCards Identifiers for PVT1 Gene

  • GC08P127815
  • GC08U900029
  • GC08P128764
  • GC08P128876
  • GC08P128879
  • GC08P128807
  • GC08P124129
  • GC08P127797
  • GC08P127798
  • GC08P127807
  • GC08P127808
  • GC08P127799
  • GC08P127800
  • GC08P127801
  • GC08P127802
  • GC08P127803
  • GC08P127804
  • GC08P127805

Summaries for PVT1 Gene

Entrez Gene Summary for PVT1 Gene

  • This gene represents a long non-coding RNA locus that has been identified as a candidate oncogene. Increased copy number and overexpression of this gene are associated with many types of cancers including breast and ovarian cancers, acute myeloid leukemia and Hodgkin lymphoma. Allelic variants of this gene are also associated with end-stage renal disease attributed to type 1 diabetes. Consistent with its association with various types of cancer, transcription of this gene is regulated by the tumor suppressor p53 through a canonical p53-binding site, and it has been implicated in regulating levels of the proto-oncogene MYC to promote tumorigenesis. [provided by RefSeq, Sep 2015]

GeneCards Summary for PVT1 Gene

PVT1 (Pvt1 Oncogene) is an RNA Gene, and is affiliated with the misc_RNA class. Diseases associated with PVT1 include Plasmacytoma and Cleft Lip.

Gene Wiki entry for PVT1 Gene

Rfam classification for PVT1 Gene

  • Pvt1 oncogene conserved region 5
  • Pvt1 oncogene conserved region 6
  • Pvt1 oncogene conserved region 1
  • Pvt1 oncogene conserved region 3
  • Pvt1 oncogene conserved region 4
  • Pvt1 oncogene conserved region 7
  • Pvt1 oncogene conserved region 2
  • U1 spliceosomal RNA

Additional gene information for PVT1 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , PharmGKB "VIP" Summary and piRNA Summary for PVT1 Gene

Genomics for PVT1 Gene

GeneHancer (GH) Regulatory Elements for PVT1 Gene

Promoters and enhancers for PVT1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH08J127793 Promoter/Enhancer 1.8 Ensembl ENCODE CraniofacialAtlas dbSUPER 765.4 +1.5 1478 5.2 SIN3A SREBF1 POLR2A ETV6 RELA L3MBTL2 DACH1 MNT NFIB NKRF PVT1 MIR1204 ENSG00000224722 CASC11 MYC lnc-FAM84B-8
GH08J127794 Enhancer 0.2 ENCODE 750.6 -1.2 -1222 0.1 PVT1 lnc-FAM84B-8 lnc-MYC-4
GH08J127732 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 31.2 -56.4 -56432 11.6 PPP1R10 E2F8 SIN3A ZNF24 ZBTB40 SP1 CTCF FOXA1 RBPJ POLR2A MYC RF00216 lnc-FAM84B-21 ENSG00000224722 RNU1-106P PVT1 POU5F1B MIR1204 TMEM75 CASC11
GH08J127972 Promoter/Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 25.8 +183.2 183239 9.5 SMARCE1 ETV6 RELA L3MBTL2 DACH1 TEAD4 MLLT1 CEBPG IKZF1 CREB1 RNU1-106P MYC PVT1 TMEM75 POU5F1B RNU4-25P MIR1207 MIR1204 CASC11 MIR1205
GH08J128045 Promoter/Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 18.7 +253.8 253822 6.2 SMARCE1 POLR2A RUNX1 MYC CC2D1A ETV6 ELF1 RELA HLF L3MBTL2 MIR1207 RNU1-106P MYC ENSG00000224722 PVT1 POU5F1B RNU4-25P MIR1205 TMEM75 MIR1208
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PVT1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PVT1 gene promoter:
  • AhR
  • AML1a
  • Arnt
  • C/EBPalpha
  • E4BP4
  • FOXF2
  • p53
  • Pax-2a
  • Pax-2b
  • TBP

Genomic Locations for PVT1 Gene

Genomic Locations for PVT1 Gene
393,689 bases
Plus strand
306,721 bases
Plus strand

Genomic View for PVT1 Gene

Genes around PVT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PVT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PVT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PVT1 Gene

Proteins for PVT1 Gene

Post-translational modifications for PVT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for PVT1 Gene

Domains & Families for PVT1 Gene

genes like me logo Genes that share domains with PVT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences , Graphical View of Domain Structure and UniProtKB/Swiss-Prot for PVT1 Gene

Function for PVT1 Gene

Molecular function for PVT1 Gene

GENATLAS Biochemistry:
plasmocytoma variant translocation (pvt-1) mouse oncogene homolog,c-myc activator (260kb,3') same as Mis1/MLVI-1

Phenotypes From GWAS Catalog for PVT1 Gene

Phenotypes for PVT1 Gene

genes like me logo Genes that share phenotypes with PVT1: view

Animal Model Products

CRISPR Products

miRNA for PVT1 Gene

miRTarBase miRNAs that target PVT1

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PVT1 Gene

Localization for PVT1 Gene

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PVT1 gene
Compartment Confidence
extracellular 1
cytoskeleton 1
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for PVT1 Gene

Pathways & Interactions for PVT1 Gene

PathCards logo

SuperPathways for PVT1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PVT1 Gene


No data available for Pathways by source and SIGNOR curated interactions for PVT1 Gene

Drugs & Compounds for PVT1 Gene

No Compound Related Data Available

Transcripts for PVT1 Gene

CRISPR Products

Alternative Splicing Database (ASD) splice patterns (SP) for PVT1 Gene

No ASD Table

Relevant External Links for PVT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PVT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PVT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of PVT1 Gene:


SOURCE GeneReport for Unigene cluster for PVT1 Gene:

genes like me logo Genes that share expression patterns with PVT1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for PVT1 Gene

Orthologs for PVT1 Gene

Evolution for PVT1 Gene

Gene Tree for PVT1 (if available)
Gene Tree for PVT1 (if available)

No data available for Orthologs for PVT1 Gene

Paralogs for PVT1 Gene

No data available for Paralogs for PVT1 Gene

Variants for PVT1 Gene

Sequence variations from dbSNP and Humsavar for PVT1 Gene

SNP ID Clin Chr 08 pos Variation AA Info Type
rs1000003273 -- 127,925,807(+) A/C/G intron_variant
rs1000011099 -- 127,848,489(+) G/T intron_variant
rs1000011972 -- 127,910,796(+) A/G intron_variant
rs1000016542 -- 127,905,269(+) A/G intron_variant
rs1000017854 -- 127,967,392(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PVT1 Gene

Variant ID Type Subtype PubMed ID
dgv4241e59 CNV duplication 20981092
esv2538862 CNV deletion 19546169
esv2662809 CNV deletion 23128226
esv2668349 CNV deletion 23128226
esv2752208 CNV gain 17911159
esv2761470 CNV loss 21179565
esv3334403 CNV insertion 20981092
esv3368834 CNV insertion 20981092
esv3441805 CNV duplication 20981092
esv3572989 CNV loss 25503493
esv3584895 CNV loss 24956385
esv3618784 CNV loss 21293372
esv3618785 CNV loss 21293372
esv3618786 CNV loss 21293372
esv3618787 CNV loss 21293372
esv3618789 CNV loss 21293372
esv3618790 CNV loss 21293372
esv3891479 CNV loss 25118596
nsv1109993 CNV deletion 24896259
nsv1161798 CNV duplication 26073780
nsv474033 CNV novel sequence insertion 20440878
nsv499795 OTHER inversion 21111241
nsv520172 CNV loss 19592680
nsv523895 CNV loss 19592680
nsv524801 CNV loss 19592680
nsv6388 CNV deletion 18451855
nsv7419 OTHER inversion 18451855

Additional Variant Information for PVT1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for PVT1 Gene

Disorders for PVT1 Gene

MalaCards: The human disease database

(38) MalaCards diseases for PVT1 Gene - From: LncRNADisease, HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
  • myeloma - solitary
cleft lip
  • cheiloschisis
malignant pleural mesothelioma
  • malignant mesothelioma of pleura
lymphoma, hodgkin, classic
  • chl
b-cell lymphoma
  • b-cell lymphocytic neoplasm
- elite association - COSMIC cancer census association via MalaCards
Search PVT1 in MalaCards View complete list of genes associated with diseases

Genatlas disease for PVT1 Gene

Burkitt lymphoma variant/acute lymphoblastic leukemia with translocations t(2;8)(p12;q24);t(8;22)(q24;q11)

Additional Disease Information for PVT1

Genetic Association Database
Human Genome Epidemiology Navigator
Tumor Gene Database
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with PVT1: view

No data available for UniProtKB/Swiss-Prot for PVT1 Gene

Publications for PVT1 Gene

  1. The PVT-1 oncogene is a Myc protein target that is overexpressed in transformed cells. (PMID: 17503467) Carramusa L … Feo S (Journal of cellular physiology 2007) 2 3 23 56
  2. Analysis of long non-coding RNA expression profiles in gastric cancer. (PMID: 23801869) Cao WJ … Zhang ZY (World journal of gastroenterology 2013) 2 3 56
  3. Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis. (PMID: 21833088) International Multiple Sclerosis Genetics Consortium … Compston A (Nature 2011) 3 43 56
  4. Association of IFIH1 and other autoimmunity risk alleles with selective IgA deficiency. (PMID: 20694011) Ferreira RC … Hammarström L (Nature genetics 2010) 3 43 56
  5. A genome-wide association study of Hodgkin's lymphoma identifies new susceptibility loci at 2p16.1 (REL), 8q24.21 and 10p14 (GATA3). (PMID: 21037568) Enciso-Mora V … Houlston RS (Nature genetics 2010) 3 43 56

Products for PVT1 Gene

Sources for PVT1 Gene