Basic Information
VIS ID
TVIS20002812
Fusion event
HPV-PDCD6 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
chr5
Cytoband
p15.33
Reference genome
GRCh37/hg19
Start
300760/300645 (Hg38)
End
300760/300645 (Hg38)
Location type
Intronic
Target gene
PDCD6
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-mir-18a-3p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-10397/Downstream/762251;
Nearest TSS
ENST00000502646/Upstream/27933; ENST00000511482/Downstream/3531;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/6630, chr5-CpG: 28/Downstream/6526
Upstream sequence
gtaataaaatattttggggataagacacatatctaaacacaaaattcattcatgtttcatatacaccttatacatacagactgaaagtaattttatacaa
Downstream sequence
GCCTGTGCGCCACGGTGCTTCAGCTCGTTACGGGCCGTTAGGCCTTGTGGTGGTTCTCTCTTGGTTTCTGTGGAGAAGCCAGACCCCGCTGTGGTTGGCA
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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