Basic Information
VIS ID
TVIS20002846
Fusion event
HPV-chr7:q21.3 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
chr7
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
94829862/95200550 (Hg38)
End
94829862/95200550 (Hg38)
Location type
Intronic
Target gene
LOC105375405 ; PPP1R9A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-130b-3p ; hsa-mir-33a-5p ; hsa-mir-181a-5p ; hsa-mir-3121-3p
Nearest miRNA
hsa-mir-10525/Upstream/1483545; hsa-mir-10399/Downstream/1019112;
Nearest TSS
ENST00000635602/Upstream/290467; ENST00000608730/Downstream/13782;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/292385, chr7-CpG: 19/Downstream/123907
Upstream sequence
TCCTGGATAGAGTTCCAGGGCAGGGGTTGGGTGGGTGGGTGGCAGGACGCTAGAGAAAACATGCCAGTCTAAGCTGCTGAGAACCTAGGGCCAGTGAGAA
Downstream sequence
attacaggtgtgagccaccctacctggccCAGATTTTTCTTTAACTTGATAATTGGAATAGATGGAAAAAGAATAGTTTTTACTTGACATTTATACTTAG
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