Basic Information
VIS ID
TVIS20000071
Fusion event
HPV-chr4:q13.1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26735580
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.4
Region type
E1
Start
2672
Integrated sequence
GCCTTGGGCACCGAAGAAACACAGACGACTATCCAGCGACCAAGATCAGAGCCAGACACCGGAAACCCCTGCCACACCACTAAGTTGTTGCACAGAGACT| |CAGTGGACAGTGCTCCAATCCTCACTGCATTTAACAGCTCACACAAAGGACGGATTAACTGTAATAGTAACACTACACCCATAGTACATTTAAAAGGTGA
Host Sequence
Chromosome
chr4
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
64430179/63564461 (Hg38)
End
64430179/63564461 (Hg38)
Nearest miRNA
hsa-mir-12113/Upstream/2641777; hsa-mir-1243/Downstream/2712363;
Nearest TSS
ENST00000502981/Upstream/70183; ENST00000509473/Downstream/717075;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/214595, chr4-CpG: 32/Downstream/2105014
Upstream sequence
TGTTTTACTAGATTCCAAAGAGGAAAATGAGTGGAAATAAAATAGAACTTATTTCATTTTTATCTGCTTGAGTAGTCATTGCTTGCCCTCAGTGAAGACA
Downstream sequence
cttaattggattgaaggatgcaaagtattcctagtgtttgcaaagttcctaggtgtgtctgtgagggtgttgccaaagtagattaacatttgagttaatg
Reference
Liu, Y., et al. Comprehensive mapping of the human papillomavirus (HPV) DNA integration sites in cervical carcinomas by HPV capture technology. Oncotarget,2016, 7(5): 5852-5864.
Curate