Basic Information
VIS ID
TVIS20005106
Fusion event
HPV-LOC112268257 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
chr1
Cytoband
q44
Reference genome
GRCh37/hg19
Start
244230252/244066950 (Hg38)
End
244243606/244080304 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1I
Target gene
LOC112268257
Nearest miRNA
hsa-mir-101-1/Upstream/720695; hsa-mir-3124/Downstream/3121663;
Nearest TSS
ENST00000473358/Upstream/15667; ENST00000440148/Downstream/12722;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11714, chr1-CpG: 103/Downstream/370846
Nearby gene
ZBTB18 ; C1orf100(+) ;
Upstream sequence
tcgtcgtcgtcctcgtcctcgtcgtcttcgGcctcctcctccggcagctccagctcctcctcctcgtcctcctGCGAGGACTCCCCAGCTgcggcggcgg
Downstream sequence
aaccctgggaatagttatttttatcatatccatttcacagatgaggaaactgagctgtagaggggttaagtggtcatcaggacactagtaagaggccgag
Target sequence
TTCAGGCGAGGGATCCTAAAGGTGACACCGCGATCCTTCACCTGGAAAGCCAAGGAGACATGACATCAGTGTGTTTCACATCCTAAGCTTAAACAAATGTATATTGTTTTTACCGCCTCTTTCTCAAGGGGGAACACTGCCCCTGAAACTGCACTCCTTGAAACCGAGCAAAGGTGCCATCGCTAATGATTAGCAAGACGCTCCGGATGGTTTGCATCGAACTCCACCTGCTATGTGAAAACCCCATGCTTTTCT
Reference
Ojesina, A. I., et al. Landscape of genomic alterations in cervical carcinomas. Nature,2014,506(7488): 371-375.
Curate