Basic Information
VIS ID
TVIS20002779
Fusion event
HPV-TMC5 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
chr16
Cytoband
p12.3
Reference genome
GRCh37/hg19
Start
19454946/19443624 (Hg38)
End
19454946/19443624 (Hg38)
Location type
Intronic
Target gene
TMC5
miRNAs that regulate target gene
hsa-mir-548c-3p ; hsa-mir-873-3p ; hsa-mir-3613-3p ; hsa-mir-6832-5p ; hsa-mir-511-5p ; hsa-mir-431-5p ; hsa-mir-4635 ; hsa-mir-6771-3p ; hsa-mir-5006-5p ; hsa-mir-3972 ; hsa-mir-1202 ; hsa-mir-3194-5p ; hsa-mir-3605-3p ; hsa-mir-4738-5p ; hsa-mir-622 ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-3920
Nearest miRNA
hsa-mir-1225/Upstream/949048; hsa-mir-11401/Downstream/2062425;
Nearest TSS
ENST00000527434/Upstream/25928; ENST00000572147/Downstream/12826;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/32448, chr16-CpG: 50/Downstream/78035
Upstream sequence
cccagtgtccAGTGAATCCCAAGCCTCACAGGACATTGACGAGGATGCGGTGAGAATTCTGAGATTGCCAGCAGACATCCCCGCTGCTGCTTATTAGTGG
Downstream sequence
taactcagggttggcatttagtctgcatttgtggaatggaatggaatggatggatggatgaatacattaatgaatggatggatacatggatggatagatg
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