Basic Information
VIS ID
TVIS30003084
Fusion event
HIV-ZSWIM9 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
q13.33
Reference genome
GRCh37/hg19
Start
48695781/48192524 (Hg38)
End
48695781/48192524 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZSWIM9
miRNAs that regulate target gene
hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6845-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-3667-3p ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-5088-3p ; hsa-mir-1247-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-3679-3p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-361-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p
Nearest miRNA
hsa-mir-10395/Upstream/965503; hsa-let-7e/Downstream/817382;
Nearest TSS
ENST00000633603/Upstream/20602; ENST00000595201/Downstream/11428;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/9696, chr19-CpG: 108/Downstream/2119
Upstream sequence
gggcgacagagtgagactctgtctcaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaTATATATATATATATATacacacacacacacacacacaTTTAC
Downstream sequence
ATAGCCCCGCCTTCATCAAATGTCACCCTGCCCCTTAAAATGCCGCCCATGCATGTTCTCCCACCTACTGCTTTTGTTTCCAATCATTCCTAATGgcccg
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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