Basic Information
VIS ID
TVIS30005248
Fusion event
HIV-FGGY 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
chr1
Cytoband
p32.1
Reference genome
GRCh37/hg19
Start
60159924/59694252 (Hg38)
End
60159924/59694252 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1B
Target gene
FGGY
miRNAs that regulate target gene
hsa-mir-26b-5p
Nearest miRNA
hsa-mir-12136/Upstream/4468529; hsa-mir-101-1/Downstream/38975;
Nearest TSS
ENST00000473358/Upstream/20566; ENST00000480847/Downstream/61420;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/397130, chr1-CpG: 90/Downstream/120163
Upstream sequence
gtggcgggcgcctgtcgtcccagctactcgggaggctgaggcaggagaatggcgtgaacccgggaggaggagcttgcagtgagttgagatcacgccactg
Downstream sequence
cactccagcctgggcgacaaagcaagactccgtcttaaataaataaataaataaataaataaataaataaataaataaataaaATACTGAAAGCTCCATG
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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