Basic Information
VIS ID
TVIS20003170
Fusion event
HPV-LOC105373664 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
q22.3
Reference genome
GRCh37/hg19
Start
146382651/145625083 (Hg38)
End
146382651/145625083 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2K
Target gene
LOC105373664
Nearest miRNA
hsa-mir-128-1/Upstream/5038398; hsa-mir-10b/Downstream/3705195;
Nearest TSS
ENST00000437798/Upstream/21660; ENST00000414967/Downstream/290007;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/1100595, chr2-CpG: 49/Downstream/962150
Upstream sequence
AAGGCAAGTGGATTTTAATAAAGGGCAATACCAGTGATTTCAAAGAAAGAGAAATACTGCAAGGTGCTGCATCATGAAAAGCAGTCCCATGAAGAAAAAG
Downstream sequence
TACCAGATCCTTGCTTTATAACCCATGGAAACCTACCCAAAGATCAGAGGCATATGAGATTAAAATCTGGGGCATAATTTTCTAAACAGTATGTGTTGGG
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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