Basic Information
VIS ID
TVIS20004552
Fusion event
HPV-chr13:q22.1 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
E2:E4
Start
3384
End
3417
Integrated sequence
ATTAGGCAGCACTTGGCCAACCACCCCGCCGCGA
Host Sequence
Chromosome
chr13
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
73789077/73214729 (Hg38)
End
73788866/73214940 (Hg38)
Fragile sites / regions
FRA13B
Nearest miRNA
hsa-mir-1297/Upstream/6996405; hsa-mir-1267/Downstream/4483072;
Nearest TSS
ENST00000623511/Upstream/139714; ENST00000430033/Downstream/331901;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/154497, chr13-CpG: 31/Downstream/919032
Downstream sequence
ATGCTGCTCAGCTTAGCTGACTAACC
Target sequence
atacaaaaattagctgggtgtagtggcacacgcctgtaatcccagctactcgggaggctggggaaggagaatcacttgaacctgggaggcggacgttgcagtgagccaagatcataccactgcatttcagcctaggtgacagggcgagactctgtctcaaaaaaaaaaaaaaaaaaaGAGTCGATGTAAGAGATGATGTAATTACAAGTCA
Junction sequence
GGAAGTGCAGTTTGATGGAGACATATGCTGCTCAGCTTAGCTGACTAACC
* 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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