Basic Information
VIS ID
TVIS20002054
Fusion event
HPV-SLIT3 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
chr5
Cytoband
q35.1
Reference genome
GRCh37/hg19
Start
168634724/169207720 (Hg38)
End
168634724/169207720 (Hg38)
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
SLIT3
miRNAs that regulate target gene
hsa-mir-218-2-3p ; hsa-mir-218-5p ; hsa-mir-1343-3p ; hsa-mir-208a-5p ; hsa-mir-208b-5p ; hsa-mir-214-3p ; hsa-mir-24-3p ; hsa-mir-3074-5p ; hsa-mir-3619-5p ; hsa-mir-3690 ; hsa-mir-4254 ; hsa-mir-4291 ; hsa-mir-4511 ; hsa-mir-6077 ; hsa-mir-646 ; hsa-mir-6783-3p ; hsa-mir-7152-5p ; hsa-mir-7-5p ; hsa-mir-761 ; hsa-mir-922
Nearest miRNA
hsa-mir-10397/Upstream/439465; hsa-mir-10523/Downstream/55881;
Nearest TSS
ENST00000502646/Upstream/177282; ENST00000503209/Downstream/93026;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/627807, chr5-CpG: 94/Downstream/92705
Upstream sequence
aaagaactaaaaatagaactaacatttgatccagaaatctcattactgggtatatacccaaagaaaaataagtcattctactaagaagataataagtcaa
Downstream sequence
ccccactaaaattcacattcaaaattcaaccactgagatgatggcatttggaggtgggacctttgggcggtgactgggccatgagggtggagccctcatg
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