Basic Information
VIS ID
TVIS20004425
Fusion event
HPV-DEPDC5 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
chr22
Cytoband
q12.3
Reference genome
GRCh37.p5
Start
32302191/31906205 (Hg38)
End
32302191/31906205 (Hg38)
Orient
+
Location type
Exon39
Fragile sites / regions
FRA22B
Target gene
DEPDC5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-331-3p
Nearest miRNA
hsa-mir-1286/Upstream/284674; hsa-let-7a-3/Downstream/1530377;
Nearest TSS
ENST00000624155/Upstream/8570; ENST00000443669/Downstream/38256;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/152127, chr22-CpG: 131/Downstream/37865
Upstream sequence
ATTCTGCCTCTGCTTTTAACTTCCCTGCTGAGAACAAGCCTCAGTATATCCACGTTACAGGTGAGGAGCTACGGGCAGAGTTGGGCAGGTGGGTCCACAT
Downstream sequence
AACAGTGTTTCTGCAGCTGCCCTACTCCAAGCGCAAGTTCTCAGGGCAGCAGCGGCGGCGGCGGAACTCCACCAGCTCCACCAACCAGAACATGTTCTGC
Target sequence
CCCTTTCCTTGCACCAAGCCTATGGCTGCAGAACCACCTCAGCAGGCTCCAGGAGCCCTCCTGGTGGCTGCCACACAGGCGCTCCCCTTTCTCTTCAGG
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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