Basic Information
VIS ID
TVIS30005554
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
13156287/13114287 (Hg38)
End
13156287/13114287 (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/388934; hsa-mir-107/Downstream/1268913;
Nearest TSS
ENST00000439456/Upstream/1800; ENST00000424614/Downstream/1981;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/13794, chr10-CpG: 43/Downstream/47149
Upstream sequence
TGAAATATGAATGTCTGACTGTCTTTGCTTTCTGATTTATTTGCTGCAATAGAGTTAGGAAACAGCTCTGAATAACCCTGCCATCCATTCCCCCTCATAC
Downstream sequence
ATTTCAGTGGCCAAAATCAAGATAATTAAAATGTCAATTGAAAAGCGTATTTTGCCAGAGTACCCCTTCTGCAAGTGATCGAAGATTACTGAGACAGAAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate