Basic Information
VIS ID
TVIS20001701
Fusion event
HPV-CASC20 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr20
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
6480379/6499732 (Hg38)
End
6480379/6499732 (Hg38)
Location type
Intronic
Target gene
CASC20
Nearest miRNA
hsa-mir-103a-2/Upstream/2582161; hsa-mir-1-1/Downstream/871876;
Nearest TSS
ENST00000382410/Upstream/53009; ENST00000378827/Downstream/236404;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/286504, chr20-CpG: 157/Downstream/267673
Upstream sequence
GGAATATTACTTATTTTGCTTTTCCAAAGAGACTTCTTGAAAACGTCTCAAGTACTCGGAGTGGAGAAAGCAGAAGGAGCGCCTTGGTGTTCCAAGAACA
Downstream sequence
tgtactcagcaaccctcataaatatgtatagcttttcccccaaacatgctgaatatgcatgatactagccctctgaggcataaaatccaacctgtttttc
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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