Basic Information
VIS ID
TVIS20000547
Fusion event
HPV-LHFPL6 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
40003210/39429073 (Hg38)
End
40003210/39429073 (Hg38)
Location type
Intronic
Target gene
LHFPL6
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-let-7g-3p ; hsa-mir-493-5p ; hsa-let-7a-2-3p ; hsa-let-7c-3p ; hsa-mir-6867-5p ; hsa-mir-3613-5p ; hsa-mir-323a-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-3149 ; hsa-mir-3668 ; hsa-mir-376a-2-5p ; hsa-mir-3935 ; hsa-mir-568 ; hsa-mir-7852-3p ; hsa-mir-8068
Nearest miRNA
hsa-mir-2276/Upstream/15266569; hsa-mir-1267/Downstream/234961;
Nearest TSS
ENST00000623511/Upstream/376001; ENST00000630730/Downstream/174098;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/390280, chr13-CpG: 75/Downstream/173639
Upstream sequence
TAAGTGGGAATGTGGATATTCTTGTGCATGAGTACCCACATTTATAGTTGAAATTACATTTTTGTTTGTTAAATTGAAAAATAGACAACATAACATCTAG
Downstream sequence
ACAACTGTGTGAAAAAGTAAGCTCTACatattgataatatattacatcataatatattatatcctattataAATAGTTTTGTAAAGTGACTTGGAAAAAT
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