Basic Information
VIS ID
TVIS20003804
Fusion event
HPV-BRSK1 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Cell line
Disease
Not given
Quality evaluation
Perfect
Reported year
2015
PubMed ID
25581428
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
NC_001526.2
Start
1197
End
1238
Orient
-
Integrated sequence
CTATATGTATAGAAAAACAAAGTAGAGCTGCAAAAAGGAGAT
Host Sequence
Chromosome
chr19
Cytoband
q13.42
Reference genome
GRCh37/hg19
Start
55818769/55307401 (Hg38)
End
55818769/55307401 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
BRSK1
miRNAs that regulate target gene
hsa-mir-339-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-1538 ; hsa-mir-4745-3p ; hsa-mir-765 ; hsa-mir-6077 ; hsa-mir-423-5p ; hsa-mir-3184-5p ; hsa-mir-1247-3p ; hsa-mir-6753-5p ; hsa-mir-4779 ; hsa-mir-129-5p ; hsa-mir-4632-3p
Nearest miRNA
hsa-let-7e/Upstream/62151; hsa-mir-10394/Downstream/80780;
Nearest TSS
ENST00000633603/Upstream/3353; ENST00000498738/Downstream/5094;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/2492, chr19-CpG: 27/Downstream/5546
Nearest cancer related gene
BRSK1(TSG, No orient, 0)
Upstream sequence
ATCTTGGCTCACTGCAACCTCTGCCTCCTGAGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGAGCCCACCACCACGCGAGGCTT
Junction sequence
ATCTTGGCTCACTGCAACCTCTGCCTCCTGAGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGAGCCCACCACCACGCGAGGCTTTGATGTTACAAACCTATAAGTATCTTCTAGTGTGCCTCCTGGG
* Color:  Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence
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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