Basic Information
VIS ID
TVIS30002015
Fusion event
HIV-DUSP16 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
chr12
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
12707373/12554439 (Hg38)
End
12707373/12554439 (Hg38)
Orient
+
Location type
Intronic
Target gene
DUSP16
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-192-5p ; hsa-mir-6818-5p ; hsa-mir-580-3p ; hsa-mir-4693-5p ; hsa-mir-4738-3p ; hsa-mir-892a ; hsa-mir-4318 ; hsa-mir-606
Nearest miRNA
hsa-mir-1244-3/Upstream/442403; hsa-let-7i/Downstream/210210;
Nearest TSS
ENST00000382841/Upstream/48252; ENST00000540224/Downstream/6447;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/196945, chr12-CpG: 111/Downstream/7260
Upstream sequence
cctcaagcgatcctcccacctcagcctcccaaagtactggatcataagaatgaaccctcatacccaaccCAACAACACAATTTTATTGCATTTAATTTCT
Downstream sequence
TACCCTACAGTTATaattggttatatattttaaatcattattagggacatttccaaatatacacaaatgtaaaaaaaataacaaactccaacttacccat
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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