Basic Information
VIS ID
TVIS20000517
Fusion event
HPV-FRMD4A 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
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
13816506/13774506 (Hg38)
End
13816506/13774506 (Hg38)
Location type
Intronic
Target gene
FRMD4A
miRNAs that regulate target gene
hsa-mir-423-3p ; hsa-mir-218-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-3155a/Upstream/1049153; hsa-mir-107/Downstream/608694;
Nearest TSS
ENST00000439456/Upstream/45123; ENST00000446193/Downstream/197863;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/116966, chr10-CpG: 86/Downstream/116976
Upstream sequence
ccttgttggtcaacaccctcttccacactgctagtcattacactcattatggcctcctggcttctggtggttaagccaccttacctctattacttcaggg
Downstream sequence
CTGAGGCTGTGTATTGCATGTCTCTTTCGTGTCTGGCTCTCACACCCCTTAAAAGGCTTTTGCCCCCTGAATCAACCCATCAGTGTCAGTTAAAATTGTC
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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