Basic Information
VIS ID
TVIS30000866
Fusion event
HIV-SFSWAP 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
chr12
Cytoband
q24.33
Reference genome
GRCh37/hg19
Start
132212695/131728150 (Hg38)
End
132212695/131728150 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
SFSWAP
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-let-7a-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-let-7i/Upstream/3433972; hsa-mir-6763/Downstream/853847;
Nearest TSS
ENST00000382841/Upstream/1161; ENST00000537164/Downstream/24973;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/16241, chr12-CpG: 18/Downstream/6632
Upstream sequence
TTGTTCGTCTGTCCTTTTCTTGGTAGTTATTTTGGAAATTGAAACCCTGTGTTCACTCAGTTCCTCTGAGACAGCCAGCTGGGGCATTTGGCCACAACTC
Downstream sequence
GTTAGGACCTCCATGGGTGCGTGCATGTGTGTGTTTTTTCTAAGGCATGTACACTGAGTCCTAAAGGTGAGCCTTTTGCAGCAGAAGAGTTCTGCATGGT
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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