Basic Information
VIS ID
TVIS20002884
Fusion event
HPV-SYNE2 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
chr14
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
64509502/64042784 (Hg38)
End
64509502/64042784 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA14B
Target gene
SYNE2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-193b-3p ; hsa-mir-148b-3p ; hsa-mir-9-5p ; hsa-mir-1-3p ; hsa-mir-34a-5p ; hsa-mir-26b-5p ; hsa-mir-21-5p ; hsa-mir-484 ; hsa-let-7b-5p ; hsa-mir-543 ; hsa-mir-376a-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-208a/Upstream/3394073; hsa-mir-1185-1/Downstream/52240;
Nearest TSS
ENST00000550708/Upstream/39760; ENST00000557060/Downstream/19998;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/188976, chr14-CpG: 45/Downstream/251229
Upstream sequence
tggtggtaggtgattggatcatgggggtggtttcccccatgctgttcttgtgatagtgagggagttctcatgagatctgatgatttttataactggcagt
Downstream sequence
gggtatgtctttatcagcaccatgagaacaaactaatacCgtaaataggtaccagtaaagtggggcattgctgaaaagatacctgaaaatgtggaagtga
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