Basic Information
VIS ID
TVIS20002753
Fusion event
HPV-LOC105378740 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
chr1
Cytoband
p32.2
Reference genome
GRCh37/hg19
Start
56284241/55818568 (Hg38)
End
56284241/55818568 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1B
Target gene
LOC105378740
Nearest miRNA
hsa-mir-12136/Upstream/592845; hsa-mir-101-1/Downstream/3914659;
Nearest TSS
ENST00000473358/Upstream/237507; ENST00000424357/Downstream/5239;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/602533, chr1-CpG: 47/Downstream/658987
Upstream sequence
TAGAAACTTTCCAGAGAATTTATAACCTATGGTCATGGAAGGGACTTTTGGTTACTATGATGTGCATAATTTGAGACGTTGTATGTCAATTGACATTTTT
Downstream sequence
CCCTGTTTTGAAAAAGTGTAGTTTGAGTGATTATGTATCAAAAGCTTGGCTGCTTAAGACGTGCTTGCCTTAACTTGTTTGGTTACCCACTTGCTCTCTG
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