Basic Information
VIS ID
TVIS20004607
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
Gene
E1
Start
1048
End
1072
Integrated sequence
CAGAAACAGAGACAGCACATGCGTT
Host Sequence
Chromosome
chr3
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
82275717/82226566 (Hg38)
End
82275739/82226588 (Hg38)
Location type
Intronic
Target gene
LINC02008
Nearest miRNA
hsa-let-7g/Upstream/2718597; hsa-mir-12124/Downstream/3159122;
Nearest TSS
ENST00000440867/Upstream/240414; ENST00000488348/Downstream/2642987;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/464764, chr3-CpG: 21/Downstream/581245
Upstream sequence
GCAGAAACAGAGACAGCACATGCGT
Target sequence
gttgcttccaagttttggcaat
Junction sequence
GCAGAAACAGAGACAGCACATGCGTCTCTGTTGCTTCCAAGTTTTGGCAAT
* 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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