Basic Information
VIS ID
TVIS30013727
Fusion event
HIV-FGD3 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
chr9
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
95760446/92998164 (Hg38)
End
95760446/92998164 (Hg38)
Orient
+
Location type
Intronic
Target gene
FGD3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-101-2/Upstream/470106; hsa-let-7a-1/Downstream/596677;
Nearest TSS
ENST00000422679/Upstream/22914; ENST00000494553/Downstream/17487;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/84673, chr9-CpG: 76/Downstream/60298
Upstream sequence
ttccaacttggttccattctccccgtcactttcaggtacaccaatcagacagaggtttggtcttttcacatagtctcatatttcttggaggctttgtttg
Downstream sequence
tttctttttactcttttttctctaaacttctcttctcacttcatttcattcatttgatcttcaatcactgataccctttcttccacttgatcaaatcagc
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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