Basic Information
VIS ID
TVIS20000083
Fusion event
HPV-LOC105374976 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
E2
Start
2941
Integrated sequence
TACATGGCATTGGACAGGACATAATGTAAAACATAAAAGTGCAATTGTTACACTTACATATGATAGTGAATGGCAACGTGACCAATTTTTGTCTCAAGTT| |AAAATACCAAAAACTATTACAGTGTCTACTGGATTTATGTCTATATGACAAATCTTGATACTGCATCCACAACATTACTGGCGTGCTTTTTGCTTTGCTT
Host Sequence
Chromosome
chr6
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
23578398/23578170 (Hg38)
End
23578398/23578170 (Hg38)
Location type
Intronic
Target gene
LOC105374976
Nearest miRNA
hsa-mir-3691/Upstream/5006290; hsa-mir-10398/Downstream/3569456;
Nearest TSS
ENST00000381078/Upstream/240459; ENST00000475830/Downstream/547952;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/1007694, chr6-CpG: 23/Downstream/547911
Upstream sequence
actggaccctatttatctttgtatgttgcagagtatttccatatcctaggttataattatttgctgaacaaatgaGATGCATAGAGGGAAAACATCCTAA
Downstream sequence
agattctgtgacctagttcgactcttgcaggaggtaaccaggcctgaatttgaacattagttctctgaattcaaaTTCTTGAGGGTGAATTCCATGAGAG
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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