Basic Information
VIS ID
TVIS20004437
Fusion event
HPV-chr13:q22 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
chr13
Cytoband
q22
Reference genome
GRCh37.p5
Start
73910828/73336691 (Hg38)
End
73910828/73336691 (Hg38)
Orient
+
Location type
Inergenic
Fragile sites / regions
FRA13E
Nearest miRNA
hsa-mir-1297/Upstream/7118367; hsa-mir-1267/Downstream/4361321;
Nearest TSS
ENST00000623511/Upstream/261676; ENST00000430033/Downstream/210150;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/276459, chr13-CpG: 31/Downstream/797281
Upstream sequence
GCATCTCTGGTTTAGAAAACTAGTGTGTTTTTATGTACCCTGGTTTGTTCATTTGTCTGTTTTCTGTTTTTTGTTTGTTTGTTTTGTTTTTGTTTTTTGA
Downstream sequence
CAGATTCCATTTTCCTGCTGCAAACTAGAGATCCTGTCTCATCTTGGATGTAATTCCTACAGTTAGACTTCTATCAAAGGGTCATTGTGCCAACTGGAAT
Target sequence
CCAGCTCGTCAATCTTTAAATCTGTTTTGCAAAATCTTAGTTAAAAAAGTATTTCTTTTCAAAGACGAGAGTAACTTTTAAAAAATTTGTGTCATTCTA
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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