Basic Information
VIS ID
TVIS20000128
Fusion event
HPV-chr13:q22.1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
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
E2/E4
Start
3384
Integrated sequence
AACTTACTATTTTTTCTTTTTTATTTTCATATATAATTTTTTTTTTTGTTTGTTTGTTTGTTTTTTAATAAACTGTTATTACTTAACAATGCGACACAAA| |CGTTCTGCAAAACGCACAAAACGTGCATCGGCTACCCAACTTTATAAAACATGCAAACAGGCAGGTACATGTCCACCTGACATTATACCTAAGGTTGAAG
Host Sequence
Chromosome
chr13
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
73788866/73214729 (Hg38)
End
73788866/73214729 (Hg38)
Fragile sites / regions
FRA13B
Nearest miRNA
hsa-mir-1297/Upstream/6996405; hsa-mir-1267/Downstream/4483283;
Nearest TSS
ENST00000623511/Upstream/139714; ENST00000430033/Downstream/332112;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/154497, chr13-CpG: 31/Downstream/919243
Upstream sequence
ACAGAAGCAGGTTCCTAACAGTCATCTTTAGACATTGTGACAATGCCCAATAGGCTCCAGTCTTATCTGTCCAGGGTTAATCAGCTAAGCTGAGCAGCAT
Downstream sequence
CCCTTTCTTGGCAATTTTGAGGGTGGCCCAAGAAAGTTCAACTTCGGTCTGTGCTGGTGAAAGAAAATATAAACACTGAGGCCATATTTTCTGCCACATA
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.
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