Basic Information
VIS ID
TVIS20003334
Fusion event
HPV-PRKCA 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
Reference genome
HE574705.1;NC_001526.2;AY262282.1;HQ537777.1;EU918767.1
Host Sequence
Chromosome
chr17
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
64709015/66712897 (Hg38)
End
64709015/66712897 (Hg38)
Location type
Intronic
Target gene
PRKCA
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-505-3p ; hsa-mir-193b-3p ; hsa-mir-92a-3p ; hsa-mir-17-3p ; hsa-mir-203a-3p ; hsa-mir-218-5p ; hsa-mir-371b-5p ; hsa-mir-6828-5p ; hsa-mir-1976 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-5196-3p ; hsa-mir-6821-5p ; hsa-mir-6842-3p ; hsa-mir-647 ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-1268b ; hsa-mir-1268a ; hsa-mir-585-3p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6847-3p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-4486 ; hsa-mir-142-3p ; hsa-mir-150-5p
Nearest miRNA
hsa-mir-10226/Upstream/1890795; hsa-mir-1250/Downstream/74175;
Nearest TSS
ENST00000595228/Upstream/296043; ENST00000307139/Downstream/122220;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/409398, chr17-CpG: 48/Downstream/122071
Nearest cancer related gene
PRKCA(OG, No orient, 0)
Upstream sequence
TGGGGAGAGAAAGGAAGGGTGGAGGTTGGCCCGGGCGCGCTGCTCTCCCGGTTCCCGGAGGCGGATGCCTCAGTGGAGCGTGACTACCAGAGAAGCAGAG
Downstream sequence
GATTTGTGTTTGCTGCAGTCATTACTCAGCCTTTTCTCTGCCTTCCATCCCCAGGAATTATGAATTACAGAGTTTTCCCTAATGGAGGTGTCACTGTGCA
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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