Basic Information
VIS ID
TVIS20005084
Fusion event
HPV-LOC107985675 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
chrX
Cytoband
p22.31
Reference genome
GRCh37/hg19
Start
8061727/8093686 (Hg38)
End
8087826/8119785 (Hg38)
Location type
Intronic
Target gene
LOC107985675
Nearest miRNA
hsa-mir-3690-1/Upstream/945749; hsa-let-7f-2/Downstream/7180;
Nearest TSS
ENST00000429181/Upstream/86308; ENST00000453306/Downstream/51482;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/166119, chrX-CpG: 144/Downstream/611031
Nearby gene
PNPLA4 ; VCX2(+) ;
Upstream sequence
ttacattagtaccatgctgttttgactactatagccttgtagtatattttgaagtcaatgtcctgctttgatctttttgctcaggattgctttggctatt
Downstream sequence
tctggctgttgcccctgctggagtgcagtggcacgatcttggctcactgcaacctccatctccagggttcaagagattttcttgcctcagcctcccgagt
Target sequence
TTGAAAAGCATTTCACCTTCAGAGAGGAGCCTGCAGTTTGCTGTGGTGCGGCGTTCATTGATTCTACAGTATGATGTGATGTAGGGTGGACAGATCCAGGTATGCTTACAGGTCTACACCAGAACATTCCTTAAATCCTTTGCTGAGGAGCATGAACTTAGTCCCTCAGGAGGACACCTTAGGAGGTTTCACAATGAGAGATGCCATTGAAAGTTGAGTGTGGGAGTACAGTGAAAGGTTGAAGCTGCACAGACA
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate