Basic Information
VIS ID
TVIS20002793
Fusion event
HPV-PARD3B integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Squamous-cell carcinoma (SCC)
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr2
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
205420616/204555893 (Hg38)
End
205420616/204555893 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
PARD3B
miRNAs that regulate target gene
hsa-mir-6873-3p ; hsa-mir-3941 ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6758-3p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-3180-5p ; hsa-mir-4642 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-891a-3p ; hsa-mir-3688-5p ; hsa-mir-4267
Nearest miRNA
hsa-mir-10b/Upstream/15422782; hsa-mir-1244-1/Downstream/2227341;
Nearest TSS
ENST00000437798/Upstream/9893; ENST00000489565/Downstream/409259;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/9706, chr2-CpG: 91/Downstream/1125986
Upstream sequence
cataacggtacatgcaagtacagatgttccgaaaattatgataaggttatatcccaataaaaccatcataagttgaaaatattataagtcaaaattgcat
Downstream sequence
ataaccttctgagaaccctttctattgcccttccctgatttacttctatctacagaccatattcttcctaccataccacttattttaactgtatttcttg
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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