Basic Information
VIS ID
TVIS20000139
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
HPV58
Reference genome
NC_001357.1
Region type
E1
Start
2164
Integrated sequence
GAGCTGACAGATGAAAGCGATATGGCATTTGAATATGCCTTATTAGCAGACAGCAACAGCAATGC AGCTGCCTTTTTAAAAAGCAATTGCCAAGCTAAA| |TATTTAAAAGATTGTGCCACAATGTGCAAACATTAT AGGCGAGCCCAAAAACGACAAATGAATATGTCACAGTGGATACGATTTAGATGTTCAAAAATA
Host Sequence
Chromosome
chr4
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
64506111/63640393 (Hg38)
End
64506111/63640393 (Hg38)
Nearest miRNA
hsa-mir-12113/Upstream/2717709; hsa-mir-1243/Downstream/2636431;
Nearest TSS
ENST00000502981/Upstream/146115; ENST00000509473/Downstream/641143;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/290527, chr4-CpG: 32/Downstream/2029082
Upstream sequence
CCGTCATCAACATGCATCCACTGCCAGTTTGAGAAGCTCATCTCATCTGGACTCTAGATACAGCCATAGGCTTCTGAATCTCTGTTGCTTGgcctagtgc
Downstream sequence
GCTCTTATTTCATTTTAATTCTTTTTAGTATCAACATTTAGCTGTAGTTTGATATAAAATTCTTTATCTAAAAATTTGAAAGTAGTTATTCTGCATATAA
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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