Basic Information
VIS ID
TVIS20004565
Fusion event
HPV-chr6:p21.1 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
E1
Start
2246
End
2280
Integrated sequence
AGATTTTTGCAAGGCATACCTAAAAAAAATTGCAT
Host Sequence
Chromosome
chr6
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
45659179/45691417 (Hg38)
End
45659154/45691442 (Hg38)
Fragile sites / regions
FRA6H
Nearest miRNA
hsa-mir-10398/Upstream/493647; hsa-mir-10524/Downstream/6452907;
Nearest TSS
ENST00000381078/Upstream/114647; ENST00000321037/Downstream/246022;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/27340, chr6-CpG: 72/Downstream/323698
Upstream sequence
AAGGCCACCACTTTGCCTTGTTTATAA
Target sequence
ataaacaaggcaaagtggtggcctt
Junction sequence
AAGGCCACCACTTTGCCTTGTTTATAAGATTTTTGCAAGGCATACCTAAAAAAAATTGCA
* 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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