Basic Information
VIS ID
TVIS20004435
Fusion event
HPV-chr10:q23.33 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
chr10
Cytoband
q23.33
Reference genome
GRCh37.p5
Start
95015832/93256075 (Hg38)
End
95015832/93256075 (Hg38)
Orient
-
Location type
Intergenic
Fragile sites / regions
FRA10D
Nearest miRNA
hsa-mir-107/Upstream/3663248; hsa-mir-1287/Downstream/2808240;
Nearest TSS
ENST00000439456/Upstream/179742; ENST00000445435/Downstream/67600;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/180576, chr10-CpG: 54/Downstream/240301
Upstream sequence
AAGGTTAATTCCATCCTGAGTTTCTAGAAAACAGTTTTAGTCCTCTCAATTTGGTTTCTGCCTTGCTACATAGCAAATTATGTGGTCCTTCTTCTTCTTT
Downstream sequence
TCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGTCATGCACCACCACGCCCGGCTAACTTTTTTTATATTTTTAGCAAAGACGGAGTTTCACCATGTT
Target sequence
TTTTTTTTGAGATGGAGTTTCGCTCTTGTTGCCCAGGCTGGAGTGCAATGGCGCGATCTTGGCTCACCGCAACCTCTGCCTCCCGGATTCAAGCGATTC
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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