Basic Information
VIS ID
TVIS30013134
Fusion event
HIV-ST3GAL6 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
chr3
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
98475952/98757108 (Hg38)
End
98475952/98757108 (Hg38)
Orient
-
Location type
Intronic
Target gene
ST3GAL6
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-526b-5p ; hsa-mir-6868-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-26a-5p
Nearest miRNA
hsa-let-7g/Upstream/2397069; hsa-mir-12124/Downstream/1207206;
Nearest TSS
ENST00000440867/Upstream/23652; ENST00000490684/Downstream/6201;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/24245, chr3-CpG: 90/Downstream/144179
Upstream sequence
TCATTAAAGTACCTTCTAATTTTTTAGGCTGATTTTTCTTACTTTTTTTGGAATCCTATGCACAGATTTCAGACATCAATGTATAACTTTATTCTGAAAA
Downstream sequence
AAGATCTAGAGTTCAGATGTCTACCAGGAATGAACTACATGTTTTACCCATGAATATATGCAGGCACTCAATGATTTATTAAGGTTCATCAGAGAATGAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate