Basic Information
VIS ID
TVIS30006663
Fusion event
HIV-SCAPER 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
chr15
Cytoband
q24.3
Reference genome
GRCh37/hg19
Start
77084070/76791729 (Hg38)
End
77084070/76791729 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCAPER
miRNAs that regulate target gene
hsa-mir-218-5p
Nearest miRNA
hsa-mir-10393/Upstream/1029414; hsa-mir-11181/Downstream/2418059;
Nearest TSS
ENST00000557528/Upstream/16665; ENST00000557805/Downstream/5814;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/444247, chr15-CpG: 77/Downstream/113188
Upstream sequence
CCTTAAGAAGTCTGACAACTGCTAAAAAAAAAAAACTTTGCATATACAGGGCAAGACTCCAAGAAACCTAGCAgaaagcagcagctgagaagctaatgag
Downstream sequence
ctaagctgatattgtagcaactgtatagtgctgaggaaaaaattttaaattcaggaatgcagtggccttggcgaacattctagcttttcatttgagaccc
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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