Basic Information
VIS ID
TVIS30005553
Fusion event
HIV-OPTN 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
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
13145541/13103541 (Hg38)
End
13145541/13103541 (Hg38)
Orient
+
Location type
Intronic
Target gene
OPTN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-9-5p ; hsa-mir-92a-3p ; hsa-mir-17-3p ; hsa-mir-17-5p ; hsa-mir-5698 ; hsa-mir-143-5p ; hsa-mir-6879-3p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p ; hsa-mir-2276-5p ; hsa-mir-500b-3p ; hsa-mir-4279 ; hsa-mir-6868-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p
Nearest miRNA
hsa-mir-3155a/Upstream/378188; hsa-mir-107/Downstream/1279659;
Nearest TSS
ENST00000439456/Upstream/3316; ENST00000486862/Downstream/8946;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/3048, chr10-CpG: 43/Downstream/57895
Upstream sequence
gtcagtgtaaggcaggtaccatttgacacattatgactttctgaccactagagccatcccacagtggaacagacagtgcctgctaaggtcactgcactcg
Downstream sequence
tgctctgtcattgaaatactcaagcctgctctataggatcatgtgccatcgaaaccagacaagacattcttgcattgaatatattggtctggatcatttc
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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