Basic Information
VIS ID
TVIS20004410
Fusion event
HPV-chr17:q23.1 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
E2
Start
3061
Integrated sequence
TTACAAGCAATTGAACTGCAACTAACGTTAGAAACAATATATAACTCACAATATAGTAATGAAAAGTGGACATTACAAGACGTTAGCCTTGAAGTGTATT| |TAACTGCACCAACAGGATGTATAAAAAAACATGGATATACAGTGGAAGTGCAGTTTGATGGAGACATATGCAATACAATGCATTATACAAACTGGACACA
Host Sequence
Chromosome
chr17
Cytoband
q23.1
Reference genome
GRCh37.p5
Start
57921102/59843741 (Hg38)
End
57921102/59843741 (Hg38)
Orient
+
Location type
Intergenic
Nearest miRNA
hsa-mir-10226/Upstream/2404; hsa-mir-1250/Downstream/199284;
Nearest TSS
ENST00000595228/Upstream/5790; ENST00000477179/Downstream/35021;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/135994, chr17-CpG: 73/Downstream/48940
Nearby gene
MIR21(-1486) ; RNU6-450P(+3697) ;
Nearest cancer related gene
MIR21(OG, -1486) ;
Upstream sequence
TTAAAAGAGCCTCAGTTTCTTTCATCTATAAAAATAAAAGAGATAGAAGGACAGTTTACCTAAGGAATAAATCTGGTAACATGTAAAGTACTGAAATAGG
Downstream sequence
GTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTGGGCAGATCACCTGAGTTCGAGACCAGCCTAACCAACATGGCGAAATCACATCTCTAC
Target sequence
CTGGGTGCAGTGGCTCATGCTTATAATCCTAATACTTTGGGAGGCCAAGGCAGGAGGATCCCTTTTAGGCCAAGAGTTCAATAAATAGGGCCGGGCATG
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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