Basic Information
VIS ID
TVIS30011960
Fusion event
HIV-MGA 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
chr15
Cytoband
q15.1
Reference genome
GRCh37/hg19
Start
41972372/41680174 (Hg38)
End
41972372/41680174 (Hg38)
Orient
+
Location type
Intronic
Target gene
MGA
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p
Nearest miRNA
hsa-mir-1233-1/Upstream/4707273; hsa-mir-10393/Downstream/11411;
Nearest TSS
ENST00000557528/Upstream/10450; ENST00000566288/Downstream/54380;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/18034, chr15-CpG: 63/Downstream/94116
Upstream sequence
gtaaggcccaaatcacattgttttaattggtatagctttatgatGGTAACTGCCTGACCATGGTCCTACTGTATTCCACCTCTGTGGTAAGGCGTTTTTC
Downstream sequence
TAACTAGTCATTGTTGGTTCTTTACTTTGATGCATTTCTTACTCTGTCTCTTGAGTATATTGCTCAGGTTGTTGCAGCATTCTTTCTTCTAGTTTTGCCC
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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