Basic Information
VIS ID
TVIS20002646
Fusion event
HPV-PTPRK 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
chr6
Cytoband
q22.33
Reference genome
GRCh37/hg19
Start
128474231/128153086 (Hg38)
End
128474231/128153086 (Hg38)
Location type
Intronic
Target gene
PTPRK
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-133b ; hsa-mir-9-5p ; hsa-mir-935 ; hsa-mir-877-3p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-149-5p ; hsa-mir-218-5p ; hsa-mir-1283 ; hsa-mir-7849-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10398/Upstream/1668373; hsa-mir-1202/Downstream/3639086;
Nearest TSS
ENST00000381078/Upstream/85409; ENST00000458367/Downstream/79065;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/636525, chr6-CpG: 173/Downstream/365927
Nearest cancer related gene
PTPRK(TSG, No orient, 0)
Upstream sequence
tttatttttgagacagagtctcactctgtcgccaggctggagtgcagtggcacaatctcggctcactgcaacctctgcctcctgggctcaagtgattcta
Downstream sequence
TTGCCTTCAAGTTGAACAAAAATGTGTTTGGGAAGAAAAATAAAATATGTGAAGAAATTAGTTGATTAACAAGATAAAATATAAATAACTGATGTGTATG
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