Basic Information
VIS ID
TVIS20005074
Fusion event
HPV-chr16:p13.12 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
chr16
Cytoband
p13.12
Reference genome
GRCh37/hg19
Start
14713455/14619598 (Hg38)
End
14772647/14678790 (Hg38)
Location type
Intronic
Target gene
BFAR ; PARN ; PLA2G10
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-29c-3p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-92a-3p ; hsa-mir-377-3p ; hsa-mir-8485 ; hsa-mir-521 ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-5587-5p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-323a-5p ; hsa-mir-6801-5p ; hsa-mir-4483 ; hsa-mir-1293 ; hsa-mir-4680-5p ; hsa-mir-4635 ; hsa-mir-6823-5p ; hsa-mir-34a-5p ; hsa-mir-376a-2-5p
Nearest miRNA
hsa-mir-1225/Upstream/310227; hsa-mir-11401/Downstream/222718;
Nearest TSS
ENST00000527434/Upstream/8855; ENST00000526520/Downstream/15486;
Nearest CpG islands
chr16-CpG: 55/Target, None/Upstream, None/Downstream
Nearby gene
MRTFB ; NPIPB11(+) ;
Upstream sequence
GCTCCCTGGGACGCTTGCAAGAGCCCAGCCAGGCAAGGGGAGAGATCAGAAGACACCTGTGCGGATGTCGTGGCTTCGTACCTTTCTTGTGAAGTAGTAA
Downstream sequence
tcatgtccctcccctgctcaaaaccctccttggctccccatctctctcagagaagagcctccaatgccctaggaatctagcccctatcactctccgacat
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate