Basic Information
VIS ID
TVIS30005744
Fusion event
HIV-SWAP70 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
chr11
Cytoband
p15.4
Reference genome
GRCh37/hg19
Start
9700443/9678896 (Hg38)
End
9700443/9678896 (Hg38)
Orient
+
Location type
Intronic
Target gene
SWAP70
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-145-5p ; hsa-mir-23c ; hsa-mir-23a-3p ; hsa-mir-23b-3p ; hsa-mir-130a-5p ; hsa-mir-4637 ; hsa-mir-4445-5p ; hsa-mir-186-3p ; hsa-mir-4429 ; hsa-mir-320d ; hsa-mir-320c ; hsa-mir-320b ; hsa-mir-320a
Nearest miRNA
hsa-mir-210/Upstream/588517; hsa-let-7a-2/Downstream/829374;
Nearest TSS
ENST00000527297/Upstream/14761; ENST00000534662/Downstream/41170;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/14393, chr11-CpG: 72/Downstream/79321
Nearest cancer related gene
SWAP70(OG, No orient, 0)
Upstream sequence
GTCCCATCAGTGGTGATTATTAGCACATTAGCACTCTCACTCGCTTCCTTAGTCCCTCTTAGGCATGTCCTTGTTCCCCTCCCACAACACAAGCCTAAGG
Downstream sequence
TAGATCCTTGCCTCAGCTTCCTTTTTCTTCCCCAAGACTGCGTTTCATGAAACTATTTTTCCTGCTCTACTTTCTGCTTCATTTCCTTCTTCTCATCCTA
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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