Basic Information
VIS ID
TVIS20005057
Fusion event
HPV-chr6:q21 integration
Validated
Yes
Detection method
RNA-Seq+RT-PCR
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Good
Reported year
2014
PubMed ID
24390348
Virus Sequence
Virus name
HPV
Subtype
HPV52
Reference genome
HQ537731.1
Host Sequence
Chromosome
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
108862857/108541654 (Hg38)
End
108863479/108542276 (Hg38)
Location type
Intergenic
Fragile sites / regions
FRA6F
Nearest miRNA
hsa-mir-10398/Upstream/1757434; hsa-mir-1202/Downstream/10526771;
Nearest TSS
ENST00000381078/Upstream/18517; ENST00000540898/Downstream/17559;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/246460, chr6-CpG: 477/Downstream/15351
Nearby gene
AFG1L ; FOXO3(+) ;
Nearest cancer related gene
FOXO3(TSG, +) ;
Upstream sequence
GAGAGCAAAAGATGAGAGAGGAAGGAAAGAAAAAATAGCCATACCGCAACATAAGAAACAAGTGAAAGAAAGAAGAGAAATAAGTGAAACAGTAAAGCAC
Downstream sequence
GTAAGTGACTATGTACAGAAATACTTTTTGTTTTCCATAACTCTCTGTAAAGCAATACCAGGTGCTGGCCAAAGCAAGTAGATGCTGTGTAATTTGATAG
Target sequence
ggactttatcaaaatgaaaaagtgccctgtgaaagactgctgtGTGTTGAAACAGTACCTTGCTTTTCACGATAATAAAATACCGTCTAAAATGAATGTTGATAAACTACTCTAGAGCAGTGGATCTTTTAAGTGCCCACTTTGCAGACCAACCCTTAGCGCAGTGTCCAACAGCCAGTATAGGCACTCCACAAAATGTCAATGCAACTGAATGGCTTGTCTCCACCACACGCTGACGGTTCTCTGTAGCTGAAT
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate