Basic Information
VIS ID
TVIS20004403
Fusion event
HPV-P3H2 integration
Validated
Yes
Detection method
DIPS-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
Gene
E1
Start
1403
Integrated sequence
AGAAGGGCGCCATGAGACTGAAACACCATGTAGTCAGTATAGTGGTGGAAGTGGGGGTGGTTGCAGTCAGTACAGTAGTGGAAGTGGGGGAGAGGGTGTT| |AGTGAAAGACACACTATATGCCAAACACCACTTACAAATATTTTAAATGTACTAAAAACTAGTAATGCAAAGGCAGCAATGTTAGCAAAATTTAAAGAGT
Host Sequence
Chromosome
chr3
Cytoband
q28
Reference genome
GRCh37.p5
Start
189782873/190065084 (Hg38)
End
189782873/190065084 (Hg38)
Orient
-
Location type
Intron1
Target gene
P3H2
miRNAs that regulate target gene
hsa-mir-627-5p ; hsa-mir-3653-3p ; hsa-mir-570-3p ; hsa-mir-5197-3p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-7109-5p ; hsa-mir-4665-5p ; hsa-mir-1275 ; hsa-mir-6740-5p ; hsa-mir-6867-5p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-891b ; hsa-mir-203b-3p ; hsa-mir-3689d ; hsa-mir-6825-5p ; hsa-mir-6851-5p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-7854-3p
Nearest miRNA
hsa-let-7g/Upstream/235075; hsa-mir-3137/Downstream/5069422;
Nearest TSS
ENST00000440867/Upstream/77319; ENST00000412203/Downstream/51564;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/1117321, chr3-CpG: 99/Downstream/55207
Upstream sequence
ATCAAAATGTAAAGCAGCTTCCTTAGGTGCAAACAGTAGACTGCAGGGGCTGTTCAGCTAATTCCATCTTCTAGGAAAAGCCTGTTGTTGCGTAAAGAGT
Downstream sequence
GAGAGCACTGTCTCCATTAAAAAACCGAGTCTCCCCAAGGCAATGACAGCATTTCAGATTCCATCTGGTTGTTCACTAAACTTGTTTCCCTGTCATCCTG
Target sequence
TTGGGCTCTTGGTTTCTGGTAGGCTGGCTCTCCATAATTGGAGGACTCCCTGCCTAAAAACTGCTTATGCCAGAAGGCACTGATGTCCAAGGTCTCCAG
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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