Basic Information
VIS ID
TVIS30004482
Fusion event
HIV-SETDB2 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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr13
Cytoband
q14.2
Reference genome
GRCh37/hg19
Start
50058659/49484523 (Hg38)
End
50058659/49484523 (Hg38)
Orient
+
Location type
Intronic
Target gene
SETDB2
miRNAs that regulate target gene
hsa-mir-3161 ; hsa-mir-3157-5p ; hsa-mir-513b-5p ; hsa-mir-4735-5p ; hsa-mir-4719 ; hsa-mir-4293
Nearest miRNA
hsa-mir-2276/Upstream/5288323; hsa-mir-1267/Downstream/511892;
Nearest TSS
ENST00000623511/Upstream/24615; ENST00000481509/Downstream/11087;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/39921, chr13-CpG: 60/Downstream/11363
Upstream sequence
catgcccagctacttttttgtatttttagtagagacggggtttcatgatgttggccagctggtctcaaactcctgacctcaggtgatccacccactttgg
Downstream sequence
cctcccgaagtgctgggattagaggcgtgagccactgcgcctggcTGAAGGTTTTAAGATGTATGAGAAAGAAGAGATGCAATTTTATGAAAGAATCATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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