Basic Information
VIS ID
TVIS20004654
Fusion event
HPV-chr5:q11.2 integration
Validated
Yes
Detection method
FISH, WGS, RNA-seq, qPCR
Data source
Curated
Sample type
Tumor
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24201445
Virus Sequence
Virus name
HPV
Subtype
HPV18
Reference genome
NC_001357.1
Region type
LCR
Start
7390
End
7421
Integrated sequence
TTCAAGTTATAAAACTGCACACCTTACAGCAT
Host Sequence
Chromosome
chr5
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
56751290/57455436 (Hg38)
End
56751263/57455463 (Hg38)
Fragile sites / regions
FRA5H
Nearest miRNA
hsa-mir-10397/Upstream/1946510; hsa-mir-103a-1/Downstream/1074580;
Nearest TSS
ENST00000502646/Upstream/60376; ENST00000513392/Downstream/27346;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/280742, chr5-CpG: 157/Downstream/1004044
Downstream sequence
GTAACTTAGAAAGTTACTTTACCTTTCT
Target sequence
gaaaggtaaagtaactttctaagttac
Junction sequence
TTTCAAGTTATAAAACTGCACACCTTACAGCAGTAACTTAGAAAGTTACTTTACCTTTCT
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Akagi, K., et al.Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability. Genome Res ,2014,24(2): 185-199.
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