Basic Information
VIS ID
TVIS30000594
Fusion event
HIV-RPAIN 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
chr17
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
5329718/5426398 (Hg38)
End
5329718/5426398 (Hg38)
Orient
-
Location type
Intronic
Target gene
RPAIN
miRNAs that regulate target gene
hsa-mir-940 ; hsa-mir-149-5p ; hsa-mir-107 ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1253/Upstream/456248; hsa-mir-10226/Downstream/1229042;
Nearest TSS
ENST00000595228/Upstream/6196; ENST00000571506/Downstream/6478;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/6002, chr17-CpG: 56/Downstream/12507
Upstream sequence
TGTGAGTGTTCCACACACAGATTTCATGATACTTCTTCCCACATGGATCTACTTTCTTGAAGATCCTCCAGTGCTGACTTGgagcccattgtgcatattt
Downstream sequence
cttcccagttttatgttcagtggtgtcacattggtagcttcaaatcagccatggtgagaatatctatggcatgaaaattggcaaacagtacacatcagag
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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