Basic Information
VIS ID
TVIS30000748
Fusion event
HIV-PSMD9 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
q24.31
Reference genome
GRCh37/hg19
Start
122331858/121893952 (Hg38)
End
122331858/121893952 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
PSMD9
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-186-5p ; hsa-mir-148a-3p ; hsa-mir-19b-3p ; hsa-let-7b-5p ; hsa-mir-1273g-3p ; hsa-mir-1273a ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-7703 ; hsa-mir-6512-3p ; hsa-mir-6720-5p ; hsa-mir-4504 ; hsa-mir-661 ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6742-3p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-21-5p ; hsa-mir-199a-5p
Nearest miRNA
hsa-let-7i/Upstream/449600; hsa-mir-3612/Downstream/801955;
Nearest TSS
ENST00000382841/Upstream/135; ENST00000544724/Downstream/3319;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/4814, chr12-CpG: 47/Downstream/24457
Upstream sequence
gggccgctcttcaacccaCTATGCTGTGtatgcgcgtggcatgtgctaagtactctgcaggtcagctcgttagttcttgcagcaggtagggagggaggcg
Downstream sequence
agtgctcctattcccattttataattgaggaagctgaggcttagagaggagaaggtctcagctaaggatgcccagcttgtacatggcagagttgagattc
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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