Basic Information
VIS ID
TVIS30010586
Fusion event
HIV-ILF3 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
10772226/10661550 (Hg38)
End
10772226/10661550 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ILF3
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-1296-5p ; hsa-mir-532-3p ; hsa-mir-769-5p ; hsa-mir-615-3p ; hsa-mir-92b-3p ; hsa-mir-484 ; hsa-mir-200c-3p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-149-5p ; hsa-mir-17-5p ; hsa-mir-590-5p ; hsa-mir-136-5p ; hsa-mir-204-3p ; hsa-mir-3192-5p ; hsa-mir-4314 ; hsa-mir-4646-5p ; hsa-mir-4729 ; hsa-mir-4778-5p ; hsa-mir-5187-5p ; hsa-mir-619-5p ; hsa-mir-6506-5p ; hsa-mir-6728-5p ; hsa-mir-6819-3p ; hsa-mir-6877-3p ; hsa-mir-7109-3p
Nearest miRNA
hsa-mir-1181/Upstream/109346; hsa-let-7e/Downstream/56854;
Nearest TSS
ENST00000633603/Upstream/6054; ENST00000587941/Downstream/8962;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/6419, chr19-CpG: 39/Downstream/39791
Upstream sequence
TGGACTTCACATTTTTAAATATTTCAGAATGGCATTGATAGCAAGATTTTAGACTGGCATTGCCTCGCTCGGTTGCTTGCtttttttttttttttgagac
Downstream sequence
ggagttttgctcttgttgcccaggctggagtgcaatggcgcgatctcggctcactgcaacctccatctcgcgggttcaagcgattctcctgcctcagcct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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