Basic Information
VIS ID
TVIS20000189
Fusion event
HPV-MECOM integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Reference genome
NC_001526.2;AY262282.1;EF202167.1
Host Sequence
Chromosome
chr3
Cytoband
q26.2
Reference genome
GRCh37/hg19
Start
168921998/169204210 (Hg38)
End
168921998/169204210 (Hg38)
Location type
Intronic
Target gene
MECOM
miRNAs that regulate target gene
hsa-mir-22-3p
Nearest miRNA
hsa-let-7g/Upstream/652261; hsa-mir-1224/Downstream/1218893;
Nearest TSS
ENST00000440867/Upstream/56476; ENST00000480669/Downstream/65028;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/54585, chr3-CpG: 122/Downstream/457439
Nearest cancer related gene
MECOM(OG, No orient, 0)
Upstream sequence
TTCAGCCACCAGCTCAATTTGGAAGCAAAATGATCTTAACAAACAGTGGCAGACTTGATAGACAGGCTGCTGAGCCTGGGGACCAAAACAAAGGATGAAA
Downstream sequence
ACCAAGCCAAACAATTCTGTCTTTATGTTTTTAAATAGCTTTGGTAACTCTTTAGAAACTTTACAGCTGGAAAGGAACTGCATCTTGATGGAGCTACGTT
Reference
Hu, Z., et al. Genome-wide profiling of HPV integration in cervical cancer identifies clustered genomic hot spots and a potential microhomology-mediated integration mechanism. Nat Genet,2015, 47(2): 158-163.
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