Basic Information
VIS ID
TVIS20004566
Fusion event
HPV-chrX:q27.3 integration
Validated
Yes
Detection method
FISH, WGS, RNA-seq, qPCR
Data source
Curated
Sample type
Cell line
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2014
PubMed ID
24201445
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Gene
E2
Start
2965
End
2986
Integrated sequence
AAGCAATTGAACTGCAACTAAC
Host Sequence
Chromosome
chrX
Cytoband
q27.3
Reference genome
GRCh37/hg19
Start
144789749/145708231 (Hg38)
End
144789773/145708255 (Hg38)
Fragile sites / regions
FRAXA
Nearest miRNA
hsa-let-7f-2/Upstream/4782000; hsa-mir-105-1/Downstream/284495;
Nearest TSS
ENST00000429181/Upstream/461403; ENST00000370490/Downstream/109577;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/76431, chrX-CpG: 98/Downstream/109590
Downstream sequence
ATGGCTATATATATATTTGGCTATA
Target sequence
tggctatatatatatttggctata
Junction sequence
CAAGCAATTGAACTGCAACTAATGGCTATATATATATTTGGCTATA
* 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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