Basic Information
VIS ID
TVIS20004401
Fusion event
HPV-INO80C integration
Validated
Yes
Detection method
DIPS-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
Gene
E1
Start
2313
Integrated sequence
GTAGAGTTTATGTCATTTTTAACTGCATTAAAAAGATTTTTGCAAGGCATACCTAAAAAAAATTGCATATTACTATATGGTGCAGCTAACACAGGTAAAT| |CATTATTTGGTATGAGTTTAATGAAATTTCTGCAAGGGTCTGTAATATGTTTTGTAAATTCTAAAAGCCATTTTTGGTTACAACCATTAGCAGATGCCAA
Host Sequence
Chromosome
chr18
Cytoband
q12.2
Reference genome
GRCh37.p5
Start
33076259/35496295 (Hg38)
End
33076259/35496295 (Hg38)
Orient
+
Location type
Intron1
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/5197335; hsa-mir-122/Downstream/95442;
Nearest TSS
ENST00000575820/Upstream/8825; ENST00000586725/Downstream/1304;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/118853, chr18-CpG: 53/Downstream/1286
Upstream sequence
ATACTGTTTAACAGTTACTGAGTTAAATGTATGCCTACCTTCTGACTCAGCAATTCCACTACTTCTCAAGAGAAATGAAAGCATCTATCTACACAAAGAC
Downstream sequence
AAACGACTCTCAAAAACATTGTCTCAAAAAGGAACCTAGACAGATGCAAAAGAATATGTTCCCTATTGTCCTGTATTATTCCATTTATATTATGTTCCAA
Target sequence
TTGTACAAGAATGTTCAGAGCAGCTTCTGCACAAAGCCAAAAACTGTAAACGTTCAAATATTCATCGGGTGTATGTTTATACAATGCAACAGATGTACT
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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