Basic Information
VIS ID
TVIS20002785
Fusion event
HPV-LOC105372279 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
12748920/12638106 (Hg38)
End
12748920/12638106 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
LOC105372279
Nearest miRNA
hsa-mir-1181/Upstream/1142484; hsa-let-7e/Downstream/65495;
Nearest TSS
ENST00000633603/Upstream/27148; ENST00000550939/Downstream/1992;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/26804, chr19-CpG: 27/Downstream/1951
Upstream sequence
CCCATTCACAGATGAGGACACTAGCCCACTAGTACCTGGTTGTCTACTGTCACCTCGCTGAGACCACTGTGACCTTCCTTCCTATGCCCCGCCTTCCCAG
Downstream sequence
CTCAGGAGGGCGACCCCAGTCACGTGCGACCGCTCAAGGCGGTCCTCAGAAGCGGAGGGGACCTCCGCGGGCCAGTAGGCCTTCAGAATTCTTAGAAATC
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