Basic Information
VIS ID
TVIS30012723
Fusion event
HIV-MGAT4A 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
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
99293368/98676905 (Hg38)
End
99293368/98676905 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2A
Target gene
MGAT4A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-16-5p ; hsa-mir-409-3p ; hsa-mir-376a-5p ; hsa-mir-4423-3p ; hsa-mir-376a-2-5p ; hsa-mir-3132 ; hsa-mir-197-5p ; hsa-mir-564 ; hsa-mir-3622a-5p ; hsa-mir-5582-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/1878552; hsa-mir-10b/Downstream/2632545;
Nearest TSS
ENST00000437798/Upstream/13432; ENST00000496794/Downstream/49791;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/68046, chr2-CpG: 150/Downstream/53514
Upstream sequence
tgaagaaaaacattcacggaaaaaatactagaaggaaacaaaaaatgttagtagaaatcacttggcatcaggtttatcggtgatttattttttATCTACA
Downstream sequence
CTAGTCCATGAGTTTCAACATCAGGGTGACATAATGCAAAGTTTATCAGCAGGAGGAGAAGGAGCACGCAACTTTATAAATAAGGTGAGGCAGTGGATCT
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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