Basic Information
VIS ID
TVIS20003275
Fusion event
HPV-SGMS1 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
Reference genome
NC_001526.2;AY262282.1
Host Sequence
Chromosome
chr10
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
52150594/50390834 (Hg38)
End
52150594/50390834 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
SGMS1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-124-3p ; hsa-mir-98-5p ; hsa-mir-93-5p ; hsa-mir-33a-5p ; hsa-mir-744-5p ; hsa-mir-142-3p ; hsa-mir-4477a ; hsa-mir-4775 ; hsa-mir-5094 ; hsa-mir-4328 ; hsa-mir-32-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-181c-5p ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-125b-1-3p ; hsa-mir-1273g-5p ; hsa-mir-186-3p ; hsa-mir-300 ; hsa-mir-323a-5p ; hsa-mir-3621 ; hsa-mir-3656 ; hsa-mir-379-3p ; hsa-mir-380-3p ; hsa-mir-381-3p ; hsa-mir-3924 ; hsa-mir-411-3p ; hsa-mir-4495 ; hsa-mir-4666a-3p ; hsa-mir-4733-5p ; hsa-mir-520d-5p ; hsa-mir-524-5p ; hsa-mir-605-5p ; hsa-mir-656-5p ; hsa-mir-876-3p ; hsa-mir-98-3p
Nearest miRNA
hsa-mir-1265/Upstream/1405247; hsa-mir-107/Downstream/908739;
Nearest TSS
ENST00000439456/Upstream/46588; ENST00000437213/Downstream/27644;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/237659, chr10-CpG: 53/Downstream/27130
Nearest cancer related gene
SGMS1(TSG, No orient, 0)
Upstream sequence
CCACTAACTTCTTCACTGTAAATGCAGAAGCCCCAAAGGAGCCAATTTCATGTGCCAGAGCCCAACAGGCCTGGGCTCCCATCCTCAGTGTGTTATCATG
Downstream sequence
GAAGACAAGGCAATGACAAGCAAATGGTCTTTCTTTGGGGACAGTTGTAAAGCCCTTGAGTGATAAGCCCCCTCCAATGGAATGTGGCCCTTCCTATCAA
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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