Basic Information
VIS ID
TVIS30010552
Fusion event
HIV-NOL4 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
chr18
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
31619504/34039540 (Hg38)
End
31619504/34039540 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA18A
Target gene
NOL4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-181a-5p ; hsa-mir-4776-3p ; hsa-mir-3972 ; hsa-mir-5006-5p ; hsa-mir-4755-3p ; hsa-mir-1202 ; hsa-mir-129-5p
Nearest miRNA
hsa-mir-1-2/Upstream/3740580; hsa-mir-122/Downstream/1552197;
Nearest TSS
ENST00000575820/Upstream/15901; ENST00000587528/Downstream/9054;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/460517, chr18-CpG: 45/Downstream/119543
Upstream sequence
ATTTACACATTTCAGCTCTGCAGACATTTGCAGACCAATATTTTAAGAGCAAGTCTTTATTTGGCTTAGCCTCCATTTCTGTATAAAGTTAAGATGTGCA
Downstream sequence
TTTACTTGTCATTTCAGCAAAACCCTTGCCACAATTAATGAATGGTTCCAAAAAAATAAGTGTGTGGTCAATCCCATTCCACTTTTCTTTAGCCTGTAAA
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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