Basic Information
VIS ID
TVIS20002794
Fusion event
HPV-PLEKHM3 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
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr2
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
208686280/207821556 (Hg38)
End
208686280/207821556 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
PLEKHM3
miRNAs that regulate target gene
hsa-mir-186-5p ; hsa-mir-20a-5p ; hsa-mir-129-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-6888-5p ; hsa-mir-6088 ; hsa-mir-4428 ; hsa-mir-4770 ; hsa-mir-143-3p ; hsa-mir-1277-5p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-3688-5p ; hsa-mir-3692-3p ; hsa-mir-5186 ; hsa-mir-8055 ; hsa-mir-6805-3p ; hsa-mir-5691 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-431-5p ; hsa-mir-4294 ; hsa-mir-3194-3p ; hsa-mir-924 ; hsa-mir-5003-3p ; hsa-mir-5698 ; hsa-mir-498 ; hsa-mir-6836-3p ; hsa-mir-5001-3p ; hsa-mir-4279 ; hsa-mir-4713-5p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-4284 ; hsa-mir-6722-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6499-3p ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-4264 ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-6814-5p ; hsa-mir-5693 ; hsa-mir-622 ; hsa-mir-6890-3p ; hsa-mir-5571-5p
Nearest miRNA
hsa-mir-10b/Upstream/66675; hsa-mir-1244-1/Downstream/4604707;
Nearest TSS
ENST00000437798/Upstream/51993; ENST00000448588/Downstream/1213;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/51346, chr2-CpG: 29/Downstream/109245
Upstream sequence
aaattgcatttaatacacctaacctactgaacagcatagcttaacttagcctcctttaaacatgttatgaacacttacgttagcctacagttgggcaaaa
Downstream sequence
AAGTGATATAACAGCCCAGACCCAAAATTTTAGTCATTTCTGTACTGTGTGAGCAGATATAAGAAAAAATGGCATAGACCTGACCCAGGAGCTACAGAAC
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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