Basic Information
VIS ID
TVIS20004234
Fusion event
HPV-GVQW3 integration
Validated
Yes
Detection method
WGS, RNA-seq, Whole-Exome sequencing, PCR
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
25313082
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
AY686584
Gene
L1
Start
5811
Integrated sequence
ATGAATATGTTGCACGCACAAACATATATTATCATGCAGGAACATCCAGACTACTTGCAGTTGGACATCCCTATTTTCCTATTAAAAAACCTAACAATAA| |CAAAATATTAGTTCCTAAAGTATCAGGATTACAATACAGGGTATTTAGAATACATTTACCTGACCCCAATAAGTTTGGTTTTCCTGACACCTCATTTTAT
Host Sequence
Chromosome
chr11
Cytoband
q13.5
Reference genome
GRCh37/hg19
Start
76096216/76385172 (Hg38)
End
76096216/76385172 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
GVQW3
Nearest miRNA
hsa-mir-10392/Upstream/1049986; hsa-let-7a-2/Downstream/3016850;
Nearest TSS
ENST00000527297/Upstream/2387; ENST00000606980/Downstream/4476;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/3578, chr11-CpG: 102/Downstream/59191
Junction sequence
TATGTTGGTCCAGACATGGTTTAGACACAGCAACCAGAAGCAGGTAATTAGGAG---TGTTATTGTTAGGTTTTTTAATCGGAACATAGGGATGTCCAAATGCA
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Parfenov, M., et al. Characterization of HPV and host genome interactions in primary head and neck cancers. Proc Natl Acad Sci U S A,2014,111(43): 15544-15549.
Curate