Basic Information
VIS ID
TVIS20004200
Fusion event
HPV-chr20:p11.1 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
E6
Start
481
End
598
Host Sequence
Chromosome
chr20
Cytoband
p11.1
Reference genome
GRCh37.p10
Start
26341312/26341312 (Hg38)
End
26341369/26341369 (Hg38)
Nearest miRNA
hsa-mir-103a-2/Upstream/133034; hsa-mir-1-1/Downstream/5265817;
Nearest TSS
ENST00000382410/Upstream/152874; ENST00000400552/Downstream/3947110;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/131600, chr20-CpG: 81/Downstream/2260990
Downstream sequence
TATATGTGCCACATTTTCTTAATCCAGTCTATCATTGTTGGACATTTGGGTTGGTTCC
Target sequence
atatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttcc
Junction sequence
TAATATAAGGGGTCGGTGGACCGGTCGATGTATGTCTTGTTGCAGATCATCAAGAACACGTAAAGAAACCCAGCTGTAATCATGCATGGAGATACACCTACATTGCATGAATATATGTGCCACATTTTCTTAATCCAGTCTATCATTGTTGGACATTTGGGTTGGTTCC
* 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