Basic Information
VIS ID
TVIS30000660
Fusion event
HIV-SCMH1 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
41584468/41118796 (Hg38)
End
41584468/41118796 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCMH1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-532-3p ; hsa-mir-10b-5p ; hsa-let-7e-5p
Nearest miRNA
hsa-mir-12136/Upstream/361424; hsa-mir-101-1/Downstream/2052856;
Nearest TSS
ENST00000473358/Upstream/48165; ENST00000422305/Downstream/33878;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/100775, chr1-CpG: 155/Downstream/122489
Upstream sequence
caatgaattgtaaaaataagatcattattacagttaggtcttccaattagagccccaagtgcttctttcaatttgcttcaactctgcatcCTGAGATAAC
Downstream sequence
AAAACCTAATGTTTTTTGAGCATTTCCCAAACTACCTCAGCCTTCCCACTCCAAACAAAAGAACAGATAAGCTGCACCCAAGCTGCAAAGCTGGAAATAA
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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