Basic Information
VIS ID
TVIS30012520
Fusion event
HIV-ZNF559 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
9449074/9338398 (Hg38)
End
9449074/9338398 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ZNF559
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-5692a
Nearest miRNA
hsa-mir-1227/Upstream/949018; hsa-let-7e/Downstream/699956;
Nearest TSS
ENST00000633603/Upstream/13686; ENST00000591652/Downstream/858;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/13930, chr19-CpG: 31/Downstream/24515
Upstream sequence
GGATTGTTAAACTCTCTCTCTCCTGGTCATCAAAGCCTGAAGCATATTTTCTGGCTTCAGGTGAGACAGGCTGCTCAGGCATTTTATTATAACGTGTGTG
Downstream sequence
TGTCCACTTAGCATTAGTATGAGGTGGCTTCTTGCCTTGTGAGTATGGAAGCTATCAGCAGCCTGGATTCTCAGATTTTATTTCTTCTTCTTAAGATCAT
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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