Basic Information
VIS ID
TVIS30010355
Fusion event
HIV-VPS39 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr15
Cytoband
q15.1
Reference genome
GRCh37/hg19
Start
42483198/42191000 (Hg38)
End
42483198/42191000 (Hg38)
Orient
+
Location type
Intronic
Target gene
VPS39
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-335-5p ; hsa-mir-425-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-4795-5p ; hsa-mir-5702 ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-211-3p ; hsa-mir-9500
Nearest miRNA
hsa-mir-1233-1/Upstream/324449; hsa-mir-10393/Downstream/8570;
Nearest TSS
ENST00000557528/Upstream/11897; ENST00000561800/Downstream/170;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/111356, chr15-CpG: 35/Downstream/16962
Upstream sequence
ttgatcaatgaacgaatGAATGAATAAAGTGAGACTCCTTGGAGAGAAGAGTTCGAGTCTATGGAGGATGCTGCTGCCTTTATTAACCATGTACCCTGTT
Downstream sequence
ATACCAGGTTTGGAACACGTCAGTTCATTGTTAAGTAACCACTATCAAATTAACCATGAAAGGATTAATTAGGTCATATCTTTTCTTGTTAGACACAGGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate