Basic Information
VIS ID
TVIS20003401
Fusion event
HPV-PSKH1 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
HPV58
Reference genome
HQ537777.1
Host Sequence
Chromosome
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67956108/67922205 (Hg38)
End
67956108/67922205 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
PSKH1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-149-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p
Nearest miRNA
hsa-mir-1225/Upstream/719810; hsa-mir-11401/Downstream/311221;
Nearest TSS
ENST00000527434/Upstream/28904; ENST00000569289/Downstream/7469;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/12836, chr16-CpG: 93/Downstream/13182
Upstream sequence
ccagtttggcagtggaatgcaggggattttatacatgagcttgaggaggtggtgtctgatttacatagggcacaaaagattgttctgttcggaccaggtg
Downstream sequence
CTGCTGATGCTCTTCGTCGTGGGCAGCATGACAGGGTGCCGTTCTTGTTGTCATGCTGCTTTCCTGAGTAAACTCAAAGCTCTGTTTCCAGAATTTCCTC
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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