Basic Information
VIS ID
TVIS30000636
Fusion event
HIV-RBM39 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
chr20
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
34295035/35707113 (Hg38)
End
34295035/35707113 (Hg38)
Orient
+
Location type
Intronic
Target gene
RBM39
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-484 ; hsa-mir-221-3p ; hsa-mir-26a-5p ; hsa-mir-22-3p ; hsa-mir-369-5p ; hsa-mir-382-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/253016; hsa-mir-1-1/Downstream/2809450;
Nearest TSS
ENST00000382410/Upstream/1714; ENST00000617560/Downstream/248;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/7334, chr20-CpG: 81/Downstream/34455
Upstream sequence
cgaaactccatcttaaaaaaaaaaaaaaaaaaaaaaaagagaaaTATATAAAACAACTCTATTGACGCCTTGATAGGAAATATCAAGAATAAAGTCCATT
Downstream sequence
ACTTACGTTTGAGGGTTAAACATGTTAGAGAGTTGGAAACATTGTGTTGCAAGTGGCTGAACAGAGGCAGCTGCAGCTAAAGCTGAAGCTAAAAAAAGAA
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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