Basic Information
VIS ID
TVIS30008543
Fusion event
HIV-STX18 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
chr4
Cytoband
p16.3
Reference genome
GRCh37/hg19
Start
4435353/4433626 (Hg38)
End
4435353/4433626 (Hg38)
Orient
-
Location type
Intronic
Target gene
STX18
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-4800/Upstream/2183470; hsa-mir-12113/Downstream/1489649;
Nearest TSS
ENST00000502981/Upstream/7013; ENST00000499430/Downstream/28311;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/45434, chr4-CpG: 72/Downstream/108084
Upstream sequence
aataaattaaaaaaaaAAAAAAAAAAAGAATTCccaaacactgttctgggctctgggtgaggaaaacaagacaagattctgctctcacagagcttgtgct
Downstream sequence
ctatgcgggaaatcaAGTAGGGTCATGGGACACAGTATCTGGGAGCTGCTGTAGGTGGGGTTGCCGGGTCTGTCTGAGGAAAAAATACCTGAGACCTGTA
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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