Basic Information
VIS ID
TVIS20002806
Fusion event
HPV-chr3:q27.1 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr3
Cytoband
q27.1
Reference genome
GRCh37/hg19
Start
183291322/183573534 (Hg38)
End
183291322/183573534 (Hg38)
Fragile sites / regions
FRA3C
Nearest miRNA
hsa-let-7g/Upstream/7058383; hsa-mir-1224/Downstream/313266;
Nearest TSS
ENST00000440867/Upstream/17845; ENST00000481126/Downstream/62034;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/81379, chr3-CpG: 154/Downstream/61912
Upstream sequence
CAGAAATGTTAAAATATAAGTGAAATCTATTTTACAAAGTTTGTTTGGGGAGGTACAAAGTTTTAAATAGCCAAGATAAAATATCAACAAGGAGAAGCTG
Downstream sequence
AGGAGAAAATAAAAAGTCCTAAATTGTATGGACCCTTTTAGACCCAATCtttttttttttttttttagatggagttttgctcttgtaaggctggagtgca
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
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