Basic Information
VIS ID
TVIS20002020
Fusion event
HPV-LINC00393 integration
Validated
No
Detection method
HIVID
Data source
Curated
Sample type
Tumor
Disease
Not given
Quality evaluation
Normal
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Host Sequence
Chromosome
chr13
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
74231619/73657482 (Hg38)
End
74231619/73657482 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA13E
Target gene
LINC00393
Nearest miRNA
hsa-mir-1297/Upstream/7439158; hsa-mir-1267/Downstream/4040530;
Nearest TSS
ENST00000623511/Upstream/9229; ENST00000419499/Downstream/337567;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/597250, chr13-CpG: 31/Downstream/476490
Upstream sequence
acatggtgagagggaacaagggagagagggaggaggtggcagcctcttttaaacaactagaccatgtatgaactggtagagtgagagctcactcattatt
Downstream sequence
atgaggagggcaccacaccattcataagggatccacccccatgacccaaacacctcccaataggtcccatctccaactttggggatcacattttgacaaa
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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