Basic Information
VIS ID
TVIS20002804
Fusion event
HPV-CLSTN2 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
chr3
Cytoband
q23
Reference genome
GRCh37/hg19
Start
140120552/140401710 (Hg38)
End
140120552/140401710 (Hg38)
Location type
Intronic
Target gene
CLSTN2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-3180-5p ; hsa-mir-3607-3p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-10b-3p ; hsa-mir-1343-5p ; hsa-mir-145-3p ; hsa-mir-1914-5p ; hsa-mir-3150a-3p ; hsa-mir-3175 ; hsa-mir-4434 ; hsa-mir-4516 ; hsa-mir-5703 ; hsa-mir-6763-5p ; hsa-mir-6825-5p ; hsa-mir-6878-5p ; hsa-mir-7152-5p ; hsa-mir-939-5p
Nearest miRNA
hsa-let-7g/Upstream/5963804; hsa-mir-1224/Downstream/11164166;
Nearest TSS
ENST00000440867/Upstream/466523; ENST00000286349/Downstream/53021;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/465437, chr3-CpG: 37/Downstream/280907
Upstream sequence
ccaggctggagtgcaatggcgtgatcttggctcactgcaacctccacctcctgggttcaagcaattctcctgcctcagcctccccagtagctgggattac
Downstream sequence
AACAGTCTAGACACATTTGTTGATAATATTGTCATATTGGCATTGATCTTGGGAGAGAATCAAAAAGCAGCTACTTTAGAGGTTCATCTATTCAACGCTT
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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