Basic Information
VIS ID
TVIS20004423
Fusion event
HPV-MTND2P28 integration
Validated
Yes
Detection method
APOT-PCR
Data source
Curated
Sample type
Tumor
Disease
Oropharyngeal squamous cell carcinoma (OSCC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24586376
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.1
Host Sequence
Chromosome
chr1
Cytoband
p36.33
Reference genome
GRCh37.p5
Start
564778/629398 (Hg38)
End
564778/629398 (Hg38)
Orient
+
Location type
Intron1
Fragile sites / regions
FRA1A
Target gene
MTND2P28
Nearest miRNA
hsa-mir-1302-2/Upstream/441440; hsa-mir-101-1/Downstream/3217;
Nearest TSS
ENST00000473358/Upstream/41730; ENST00000422528/Downstream/57275;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18129, chr1-CpG: 60/Downstream/149206
Upstream sequence
TTCCTAGGAACAACATATAACGCACTCTCCCCTGAACTCTACACAACATATTTTGTCACCAAGACCCTACTTCTGACCTCCCTGTTCTTATGAATTCGAA
Downstream sequence
CCATTACAATCTCCAGCATTCCCCCTCAAACCTAAGAAATATGTCTGATAAAAGAGTTACTTTGATAGAGTAAATAATAGGAGTTTAAATCCCCTTATTT
Target sequence
CAGCATACCCCCGATTCCGCTACGACCAACTCATACACCTCCTATGAAAAAACTTCCTACCACTCACCCTAGCATTACTTATATGATATGTCTCCATAC
Reference
Olthof, N. C., et al.Comprehensive analysis of HPV16 integration in OSCC reveals no significant impact of physical status on viral oncogene and virally disrupted human gene expression.2014, PLoS One 9(2): e88718.
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