Basic Information
VIS ID
TVIS20002807
Fusion event
HPV-SLBP 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
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
1708953/1707226 (Hg38)
End
1708953/1707226 (Hg38)
Location type
Intronic
Target gene
SLBP
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-106a-3p ; hsa-mir-3124-3p ; hsa-mir-4733-5p ; hsa-mir-4703-5p ; hsa-mir-3942-5p ; hsa-mir-548e-5p ; hsa-mir-129-5p ; hsa-mir-8064 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4643 ; hsa-mir-105-5p ; hsa-mir-1197 ; hsa-mir-370-3p ; hsa-mir-6893-3p ; hsa-mir-7853-5p
Nearest miRNA
hsa-mir-571/Upstream/1356974; hsa-mir-12113/Downstream/279158;
Nearest TSS
ENST00000502981/Upstream/22924; ENST00000605571/Downstream/4792;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/22482, chr4-CpG: 188/Downstream/4314
Upstream sequence
ATTTACACAACTTTAAGTAGTTAACCTAGTTCTGAGGCAGCAGAATTATTAAATAGTCAGCACCTTAAAGTAGGCAAAACATGTAATGAAGCATTTCTTT
Downstream sequence
aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagagttcaagaccagcctggctaacatggt
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.
Curate