Basic Information
VIS ID
TVIS20001431
Fusion event
HPV-PTPRC 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
chr1
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
198641152/198672023 (Hg38)
End
198641152/198672023 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA1K
Target gene
PTPRC
miRNAs that regulate target gene
hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-4309 ; hsa-mir-3198 ; hsa-mir-4653-3p ; hsa-mir-4748 ; hsa-mir-4464
Nearest miRNA
hsa-mir-101-1/Upstream/2089542; hsa-mir-1182/Downstream/186850;
Nearest TSS
ENST00000473358/Upstream/4962; ENST00000484135/Downstream/24858;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/512789, chr1-CpG: 36/Downstream/1363323
Nearest cancer related gene
PTPRC(TSG, No orient, 0)
Upstream sequence
TGCTATCCAAATAAAATCATATGGTTTTCTATGGATTTCGTATTTCATTTCTTTGCAGAGTGTAACTTGCAATGCAATTGAGCCTAGACATATCCAACAG
Downstream sequence
AGATTCTTTTGTTTTTTTTTTACCTAAATAAAATTTTTATTTCTCATAAGGAGCATAAATGTGCTGTCACACACACACAGCTCATGTTAAGGCAGGGACA
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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