Basic Information
VIS ID
TVIS20000579
Fusion event
HPV-PSG4 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
chr19
Cytoband
q13.31
Reference genome
GRCh37/hg19
Start
43706834/43202682 (Hg38)
End
43706834/43202682 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
PSG4
miRNAs that regulate target gene
hsa-mir-19b-3p ; hsa-mir-4646-3p ; hsa-mir-578 ; hsa-mir-4433b-5p ; hsa-mir-7843-3p ; hsa-mir-6868-3p ; hsa-mir-642a-5p ; hsa-mir-4786-3p ; hsa-mir-3655 ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-146a-3p ; hsa-mir-6817-3p ; hsa-mir-1248 ; hsa-mir-6769b-3p ; hsa-mir-1237-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-6877-3p ; hsa-mir-6819-3p ; hsa-mir-7109-3p
Nearest miRNA
hsa-mir-10395/Upstream/851477; hsa-let-7e/Downstream/1451004;
Nearest TSS
ENST00000633603/Upstream/4408; ENST00000607855/Downstream/1369;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/504521, chr19-CpG: 42/Downstream/205333
Upstream sequence
gcagggattacggacacactccatcgcgccctgctaatttttgtatttttagtagaggtgaggttttaccatgttggccaggctagtctggaactcctga
Downstream sequence
GGGGGTTAAGATCTGAGGGGGAGGCCTGGACATATTTTTTGCACTGACTCTGATGGTTGAGGCAGGTGATTTAGTTCTGGAGTGCAGACTAATCAGCTGA
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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