Basic Information
VIS ID
TVIS20003761
Fusion event
HPV-ADGRB3 integration
Validated
Yes
Detection method
PCR and Sanger sequencing
Data source
Curated
Sample type
Tumor
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
6865
End
6902
Orient
-
Integrated sequence
CAGGAGGCACACTAGAAGATACTTATAGGTTTGTAACC
Host Sequence
Chromosome
chr6
Cytoband
q12
Reference genome
GRCh37/hg19
Start
69487825/68777933 (Hg38)
End
69487825/68777933 (Hg38)
Location type
Intronic
Target gene
ADGRB3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-10398/Upstream/11387721; hsa-mir-10524/Downstream/2599027;
Nearest TSS
ENST00000381078/Upstream/139257; ENST00000604969/Downstream/454473;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/142779, chr6-CpG: 53/Downstream/1018467
Downstream sequence
CATCCCGATCTAGTAAGCTAGAACATCCTTTAAGCATGAACCAACAAAGCCTGTGGATGCCAATGTAGCATTAAGTTTCAGTATGTAAAAGACTACAAATGTTGACTCTACTTATTCTTGTCTATGGAACTGG
Junction sequence
CCCAGGAGGCACACTAGAAGATACTTATAGGTTTGTAACATCCCGATCTAGTAAGCTAGAACATCCTTTAAGCATGAACCAACAAAGCCTGTGGATGCCAATGTAGCATTAAGTTTCAGTATGTAAAAGACTACAAATGTTGACTCTACTTATTCTTGTCTATGGAACTGG
* 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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