Basic Information
VIS ID
TVIS30005539
Fusion event
HIV-GDI2 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
chr10
Cytoband
p15.1
Reference genome
GRCh37/hg19
Start
5836767/5794804 (Hg38)
End
5836767/5794804 (Hg38)
Orient
-
Location type
Intronic
Target gene
GDI2
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-193b-3p ; hsa-mir-328-3p ; hsa-mir-222-3p ; hsa-mir-30c-5p ; hsa-mir-20a-5p ; hsa-mir-15a-5p ; hsa-mir-4662b ; hsa-mir-4647 ; hsa-mir-4426
Nearest miRNA
hsa-mir-5699/Upstream/1803545; hsa-mir-107/Downstream/357392;
Nearest TSS
ENST00000439456/Upstream/8882; ENST00000608273/Downstream/18583;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/109070, chr10-CpG: 132/Downstream/17939
Upstream sequence
aggaatttttgaacattttgttcactgatgtgttcccaactgcctagaacagtgtctggcacatgatagacattcaataaatatttgttgactgggtcct
Downstream sequence
ctctaagactcttttccagtataaaatctcATTATTCTGAGAAAATAAAACTAGTTACTAGAGAAAATAAAACTACTTACTAGATGCCAGGGCTTCTGCT
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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