Basic Information
VIS ID
TVIS20002942
Fusion event
HPV-PCDH1 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
chr5
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
141232468/141852903 (Hg38)
End
141232468/141852903 (Hg38)
Location type
Intronic
Target gene
PCDH1
miRNAs that regulate target gene
hsa-mir-5688 ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-10397/Upstream/1204977; hsa-mir-103a-1/Downstream/1826957;
Nearest TSS
ENST00000502646/Upstream/26578; ENST00000506775/Downstream/13299;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/2384, chr5-CpG: 24/Downstream/1098
Upstream sequence
GATAGTAGCATTGACTTTTCAAAGCAATTGAAAAATTGGTTTTAGGAACCATCACAAAATTGCTAAACCATTCTATCCCAGGTCTAAAAACAAAGGCCTT
Downstream sequence
TCGGGAGCAGCACCCAGCCACCCCCTGAGCAAACCTTCCTGCTCCCAACTCACCCAACCAGGCCAGAGGCACAGTCATCCCACCCCTGTCCAGCTGCCCC
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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