Basic Information
VIS ID
TVIS20004636
Fusion event
HPV-LINC02008 integration
Validated
Yes
Detection method
FISH, WGS, RNA-seq, qPCR
Data source
Curated
Sample type
Tumor
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
Region type
LCR
Start
7591
End
7656
Integrated sequence
CCATTCCATTGTTTTTTACACTGCACTATGTGCAACTACTGAATCACTATGTACATTGTGTCATAT
Host Sequence
Chromosome
chr3
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
82041260/81992109 (Hg38)
End
82041282/81992131 (Hg38)
Location type
Intronic
Target gene
LINC02008
Nearest miRNA
hsa-let-7g/Upstream/2484140; hsa-mir-12124/Downstream/3393579;
Nearest TSS
ENST00000440867/Upstream/5957; ENST00000488348/Downstream/2877444;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/230307, chr3-CpG: 21/Downstream/815702
Target sequence
aaaactggacatccacaggcag
Junction sequence
GAAAACTGGACATCCACAGGCAGTGGATGTTACCATTCCATTGTTTTTTACACTGCACTATGTGCAACTACTGAATCACTATGTACATTGTGTCATAcattgttcatttgtaaaa
* 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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