Basic Information
VIS ID
TVIS30000867
Fusion event
HIV-HS6ST3 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr13
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
96843839/96191585 (Hg38)
End
96843839/96191585 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13D
Target gene
HS6ST3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5589-3p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-574-5p ; hsa-mir-5010-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-592 ; hsa-mir-513a-5p ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-597-5p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-4445-5p ; hsa-mir-6743-5p ; hsa-mir-4688 ; hsa-mir-6767-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1297/Upstream/3701365; hsa-mir-1267/Downstream/235644;
Nearest TSS
ENST00000623511/Upstream/100746; ENST00000620595/Downstream/640903;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/99677, chr13-CpG: 35/Downstream/802555
Upstream sequence
acctggataacttcaattactccttcaaggcctagacacaagtagtgtttttcttccctagcaacccagtctgagttaattgcctctcttatgtgcactt
Downstream sequence
actgcctctcgtgttgttccttcctattttaacatcactccatattttacttatctgtctttcccatcacggtgtgagctgtttgtcttatttactctcc
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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