Basic Information
VIS ID
TVIS20002809
Fusion event
HPV-chr4:q21.23 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
chr4
Cytoband
q21.23
Reference genome
GRCh37/hg19
Start
84731843/83810690 (Hg38)
End
84731843/83810690 (Hg38)
Nearest miRNA
hsa-mir-12113/Upstream/1057260; hsa-mir-1243/Downstream/1911778;
Nearest TSS
ENST00000502981/Upstream/78935; ENST00000511298/Downstream/569499;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/273983, chr4-CpG: 39/Downstream/670921
Nearby gene
LOC105377315(-7558) ;
Upstream sequence
ctgccctcatggaaccttccagagggaggagagaaaaggaagtgatcgatggccgatggtgacgagtaccttaggaaaagaataaacagggctgggtgcg
Downstream sequence
TACAACTGCTGTAACAGTTATTTCAGATATTCCCACCACCTCCACAGCCTCCCACACTACAATTTTTCTGCTGCCCCTGGTTATTTTATTAACTAGGCTT
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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