Basic Information
VIS ID
TVIS20004560
Fusion event
HPV-chr2:p23.3 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
E1
Start
1364
End
1392
Integrated sequence
TGCAGTCAGTACAGTAGTGGAAGTGGGGG
Host Sequence
Chromosome
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
27358998/27136130 (Hg38)
End
27359046/27136178 (Hg38)
Nearest miRNA
hsa-mir-1301/Upstream/1807409; hsa-mir-10b/Downstream/860189;
Nearest TSS
ENST00000437798/Upstream/1455; ENST00000407815/Downstream/3225;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/1311, chr2-CpG: 19/Downstream/13967
Nearby gene
PREB(-1455) ; PRR30(+717) ;
Upstream sequence
CCTCTCCGTTTCCTTTGACACCACCCTCCAGGGTCTTTTTTATTTTTTG
Target sequence
CTCTCCGTTTCCTTTGACACCACCCTCCAGGGtcttttttattttttg
Junction sequence
CCTCTCCGTTTCCTTTGACACCACCCTCCAGGGTCTTTTTTATTTTTTGCAGTCAGTACAGTAGTGGAAGTGGGG
* 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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