Basic Information
VIS ID
TVIS20002754
Fusion event
HPV-PTGFR 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
chr1
Cytoband
p31.1
Reference genome
GRCh37/hg19
Start
78967582/78501897 (Hg38)
End
78967582/78501897 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
PTGFR
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-570-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1441695; hsa-mir-11399/Downstream/6631897;
Nearest TSS
ENST00000473358/Upstream/10825; ENST00000452835/Downstream/118025;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/10066, chr1-CpG: 33/Downstream/504699
Upstream sequence
CATAATTTGAGACGTTGTATGTCAATTGACATTTTTCCCTGTTTTGAAAAAGTGTAGTTTGAGTGATTATGTATCAAAAGCTTGGCTGCTTAAGACGTGC
Downstream sequence
TTGCCTTAACTTGTTTGGTTACCCACTTGCTCTCTGTTGGTCTTTCTTTCTGCCTGTAGCTTTTTCTCTGTCTTGTTTCAGAAGACTTAATAGGAAGGTT
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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