Basic Information
VIS ID
TVIS20000033
Fusion event
HPV-chr19:q13.42 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
2600
Integrated sequence
GAAGTATCCTCTCCTGAAATTATTAGGCAGCACTTGGCCAACCACCCCGCCGCGACCCATACCAAAGCCGTCGCCTTGGGCACCGAAGAAACACAGACGA| |CTATCCAGCGACCAAGATCAGAGCCAGACACCGGAAACCCCTGCCACACCACTAAGTTGTTGCACAGAGACTCAGTGGACAGTGCTCCAATCCTCACTGC
Host Sequence
Chromosome
chr19
Cytoband
q13.42
Reference genome
GRCh37/hg19
Start
53765119/53261866 (Hg38)
End
53765119/53261866 (Hg38)
Fragile sites / regions
FRA19A
Nearest miRNA
hsa-let-7e/Upstream/979973; hsa-mir-10394/Downstream/404813;
Nearest TSS
ENST00000633603/Upstream/2656; ENST00000595091/Downstream/5857;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/6553, chr19-CpG: 30/Downstream/29292
Nearby gene
VN1R2(-2264) ; VN1R4(+2552) ;
Upstream sequence
ACTGACCCCGGTGGCGGAGGAGACGCGGGCACGGCTGTCCAAGGAGCTGCAGGCGGCGCAGGCCCGGCTGGGCGCGGACATGGAGGACGTGTGCGGCCGC
Downstream sequence
tggggaagaaaaccacacttgtcacatcatatactgtcagaagtctaaggaaatttggatgagttatctctggtgatgttaatcttgatcagttagttaa
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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