Basic Information
VIS ID
TVIS20005109
Fusion event
HPV-chr3:q26.32 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
HPV16
Reference genome
HQ644271.1
Host Sequence
Chromosome
chr3
Cytoband
q26.32
Reference genome
GRCh37/hg19
Start
177076803/177359015 (Hg38)
End
177083464/177365676 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-let-7g/Upstream/843864; hsa-mir-1224/Downstream/6521124;
Nearest TSS
ENST00000440867/Upstream/9849; ENST00000423466/Downstream/76245;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/160949, chr3-CpG: 63/Downstream/1705841
Nearby gene
TBL1XR1 ; LINC00578(+) ;
Upstream sequence
tcctccatgtggtctctctctctctcttttcctctctctctttagtgtctgccatcattcagtagtttattccaaaatctttcacatctggcttctcagg
Downstream sequence
tacaaaaaaattagtcaggggtggtggtgcacgcctgtagtcccagctacgtgggaggctgaggcaggagaatcacttgaacccgggaggtggaggttgc
Target sequence
CAGCCTGCTTCAGGAATGAGCTTGTGGAGCCCCGGAGAGAAACTCCAAAACAATCTGACGTCTTCTTTAGACATTCCAAGCCCCCAAACCGATCAGTGTACCCATAGAGCCCTATCTCTATATTTTAAgtgtgtgtgttgtatttccatgtgtatatgtgagtgtgtgtgtgtgtatgtgtgtgcgtgtgtATCTAGCCCTCATAAACAGGACTTGAAGACACTTTGGCTCAGAGACCCAACTGCTCAAAGGCAC
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate