Basic Information
VIS ID
TVIS30008377
Fusion event
HIV-LINC02008 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
chr3
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
82475173/82426022 (Hg38)
End
82475173/82426022 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINC02008
Nearest miRNA
hsa-let-7g/Upstream/2918053; hsa-mir-12124/Downstream/2959688;
Nearest TSS
ENST00000440867/Upstream/439870; ENST00000488348/Downstream/2443553;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/664220, chr3-CpG: 21/Downstream/381811
Upstream sequence
TTGGAGTACTACTCTACAGAATACTTGCACAGATGTTTGAGTTCCATGCTAAAAAATGTGTCATAATAATTAACTACTGTGGAAATCTTTGACTATGAAG
Downstream sequence
CTTTCTAAAATGTCTTACTATTTACTTACTTAGTCAAAATGGAACACCTTCACTTGACAACACTACACTTATTTTTGTTTCAAATGATCACATTTGTGAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate