Basic Information
VIS ID
TVIS20004205
Fusion event
HPV-chrX:q27.3 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
Disease
Cervical carcinoma (CC)
Quality evaluation
Perfect
Reported year
2019
PubMed ID
30679491
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E2
Start
2987
End
2848
Host Sequence
Chromosome
chrX
Cytoband
q27.3
Reference genome
GRCh37.p10
Start
145708341/145708341 (Hg38)
End
145708231/145708231 (Hg38)
Fragile sites / regions
FRAXA
Nearest miRNA
hsa-let-7f-2/Upstream/4782110; hsa-mir-105-1/Downstream/284519;
Nearest TSS
ENST00000429181/Upstream/461513; ENST00000370490/Downstream/109601;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/76541, chrX-CpG: 98/Downstream/109614
Upstream sequence
GCCAAATATATATATATATACACACACACATATATATGTATACTATATACTATAGTATATACAGTATATATAGTATATATGTAAACTATAGCCAAATATATATATAGCCAT
Target sequence
tggctatatatatatttggctatagtttacatatatactatatatactgtatatactatagtatatagtatacatatatatgtgtgtgtgtatatatatatatatttggc
Junction sequence
GCCAAATATATATATATATACACACACACATATATATGTATACTATATACTATAGTATATACAGTATATATAGTATATATGTAAACTATAGCCAAATATATATATAGCCATTAGTTGCAGTTCAATTGCTTGTAATGCTTTATTCTTTGATACAGCCAGCGTTGGCACCACCTGGTGGTTAATATGTTTAAATCCCATTTCTCTGGCCTTGTAATAAATAGCACATTCTAGGCGCATGTGTTTCCAATAG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
Reference
Lagstrom, S., et al. TaME-seq: An efficient sequencing approach for characterisation of HPV genomic variability and chromosomal integration. Sci Rep ,2019,9(1): 524.
Curate