Basic Information
VIS ID
TVIS20004421
Fusion event
HPV-INO80C 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
chr18
Cytoband
q12.2
Reference genome
GRCh37.p5
Start
33079015/35499051 (Hg38)
End
33079015/35499051 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA18A
Target gene
INO80C
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-9-3p ; hsa-mir-548as-3p ; hsa-mir-543 ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-510-3p ; hsa-mir-3692-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-494-3p
Nearest miRNA
hsa-mir-1-2/Upstream/5200091; hsa-mir-122/Downstream/92686;
Nearest TSS
ENST00000575820/Upstream/1060; ENST00000586725/Downstream/82066;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/952, chr18-CpG: 190/Downstream/81876
Upstream sequence
AGGAACCTGAGTCCCCCTACCCGCCTTGTTCTTTGCCTCATTCTACCCTATATTTTTACAGAACCTTTGCGACATCATATAACTAAATGATTTATAATCG
Downstream sequence
CTTGCAAGTCATTGGTGCATTATAAGTATTTTTAATGATGTATTTAACGAATGAACTAACTCCCTGCAGTGATTGGTGGAAGCTACTATGTTTGAATACA
Target sequence
GATGGTTAATGTCTTTTTTGGCTCCTGCTAGAATGTAATCTGTATGAGGGAAGGGTCAGTTATGTCTTGTTAACTTATCAGTCCCCCCAATCACAGTAC
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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