Basic Information
VIS ID
TVIS20001963
Fusion event
HPV-LINGO2 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
chr9
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
28471439/28471441 (Hg38)
End
28471439/28471441 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
LINGO2
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/6959256; hsa-let-7a-1/Downstream/392185;
Nearest TSS
ENST00000422679/Upstream/176110; ENST00000541043/Downstream/198844;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/897452, chr9-CpG: 74/Downstream/740732
Upstream sequence
TATCTTGTCTATAAATCATTACAGAAATAAATATTATCTTGTTTTCTGAATAAGAAAGAGAGTCAATTCTCAACTATACTATTTCATGGATCAATCACAG
Downstream sequence
AACCATCCAGGCCAAATAAGCGCCGGCTATGCCCCTGTATTGGATTGCCACATGGCTCACATTGCATGCAAGTTTGCTGAGCTGAAGGAAAAGATTGATC
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