Basic Information
VIS ID
TVIS20002849
Fusion event
HPV-PDGFRL 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
chr8
Cytoband
p22
Reference genome
GRCh37/hg19
Start
17444123/17586614 (Hg38)
End
17444123/17586614 (Hg38)
Location type
Intronic
Target gene
PDGFRL
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-25-3p
Nearest miRNA
hsa-mir-124-1/Upstream/2733104; hsa-mir-10400/Downstream/94964;
Nearest TSS
ENST00000518652/Upstream/10181; ENST00000523248/Downstream/47457;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/9169, chr8-CpG: 128/Downstream/214043
Nearest cancer related gene
PDGFRL(TSG, No orient, 0)
Upstream sequence
AATCTAAAATAATATTAATGTAAACcagggttttccaaccttggcactactcgcatttggggccagatcattctttgtaagaggttgtcctgtgtataat
Downstream sequence
TTCATCATAGAGATCTCATGTGACAACCATAAAAAAACAAATAGCACTTAGCTAGCAATcacttactgtaggtcagatgctaatttcagcagttttgaca
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