Basic Information
VIS ID
TVIS20003250
Fusion event
HPV-CNKSR2 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chrX
Cytoband
p22.12
Reference genome
GRCh37/hg19
Start
21586425/21568307 (Hg38)
End
21586425/21568307 (Hg38)
Location type
Intronic
Target gene
CNKSR2
miRNAs that regulate target gene
hsa-mir-758-3p ; hsa-mir-6808-3p ; hsa-mir-4460 ; hsa-mir-7973 ; hsa-mir-5681b ; hsa-mir-6847-3p ; hsa-mir-140-5p ; hsa-mir-6718-5p ; hsa-mir-203b-5p ; hsa-mir-4662a-3p ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-2681-5p ; hsa-mir-300 ; hsa-mir-381-3p ; hsa-mir-4666a-3p ; hsa-mir-5580-3p ; hsa-mir-8063 ; hsa-mir-98-3p
Nearest miRNA
hsa-mir-23c/Upstream/1551120; hsa-let-7f-2/Downstream/6927248;
Nearest TSS
ENST00000429181/Upstream/30439; ENST00000647058/Downstream/26564;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/193017, chrX-CpG: 270/Downstream/87593
Upstream sequence
caaactcctgacctcgtgatccacccacctcagcctcccaaagtgctgggattacaggcatgagccactgtacccggcACCCCCCAACCCCCCCTTTTTT
Downstream sequence
ATAATAGTCATTTATTTTAAGTCTACATGCTGAGATGCCAGAACAAGTAAAATTGGATTATAGATTCAAGCAGTATGTAGGTATACTTTCATAAACTGAA
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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