Basic Information
VIS ID
TVIS20004424
Fusion event
HPV-TP63 integration
Validated
Yes
Detection method
APOT-PCR
Data source
Curated
Sample type
Tumor
Disease
Oropharyngeal squamous cell carcinoma (OSCC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24586376
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.1
Host Sequence
Chromosome
chr3
Cytoband
q28
Reference genome
GRCh37.p5
Start
189567320/189849531 (Hg38)
End
189567320/189849531 (Hg38)
Orient
-
Location type
Intron4
Target gene
TP63
miRNAs that regulate target gene
hsa-mir-203a-3p ; hsa-mir-92a-3p ; hsa-mir-21-5p ; hsa-mir-124-3p ; hsa-mir-301b-3p ; hsa-mir-129-5p ; hsa-mir-6885-3p ; hsa-mir-4477b ; hsa-mir-1178-3p ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-4428
Nearest miRNA
hsa-let-7g/Upstream/19522; hsa-mir-3137/Downstream/5284975;
Nearest TSS
ENST00000440867/Upstream/59730; ENST00000412203/Downstream/114590;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/901768, chr3-CpG: 99/Downstream/270760
Nearest cancer related gene
TP63(TSG, No orient, 0)
Upstream sequence
AGAGGTCTGGATTTGCTCCTGGTTGTGTGTGGAGTCTTGGGAACTGAGTCTTCAACCTGTGCGATATGACAGATCTCCGGGTAGACAGTGTCACAGTTGA
Downstream sequence
TGTGGTAATGTGAGAGGAGAGGAAAAAACACAGTTTGAGCATTTCCCAAAACATCCTCCAAGCTAAATAGACCCCCATGTTTTACCTTCTCTCCTTTTGC
Target sequence
ATTGGAGGACACCCAGCTTGGTGTCTGCTGCTTGGTGAGTGGTGAAAAACTCCCACACATTTGGCCACAGAAGTCATCTTCTGTGTTGATGATTGTTGC
Reference
Olthof, N. C., et al.Comprehensive analysis of HPV16 integration in OSCC reveals no significant impact of physical status on viral oncogene and virally disrupted human gene expression.2014, PLoS One 9(2): e88718.
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