Basic Information
VIS ID
TVIS20003486
Fusion event
HPV-PRKN 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
NC_001526.2;HQ537688.1;HQ537777.1
Host Sequence
Chromosome
chr6
Cytoband
q26
Reference genome
GRCh37/hg19
Start
162709740/162288708 (Hg38)
End
162709740/162288708 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA6E
Target gene
PRKN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-3187-3p ; hsa-mir-1303 ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-193b-5p ; hsa-mir-4755-3p ; hsa-mir-483-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-10398/Upstream/3523955; hsa-mir-1913/Downstream/4220646;
Nearest TSS
ENST00000381078/Upstream/13322; ENST00000544266/Downstream/438424;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/642051, chr6-CpG: 75/Downstream/438636
Nearest cancer related gene
PRKN(TSG, No orient, 0)
Upstream sequence
attcatttatataaaaaacatttattgaatacctgttcagtgctatgtactgtgattagagttgaaaataggcgaaccatgaaacacagcactcccggat
Downstream sequence
aagcccACAAACATGGAAATGGTGAAACACTCACATTTTTCTACCATGATACCATTTATAAACATCGGATACATTTATCATTCCAAGGATTCTTGCCATT
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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