Basic Information
VIS ID
TVIS30011886
Fusion event
HIV-LINC01588 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
chr14
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
50461475/49994757 (Hg38)
End
50461475/49994757 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LINC01588
Nearest miRNA
hsa-mir-208a/Upstream/28246; hsa-mir-1185-1/Downstream/305098;
Nearest TSS
ENST00000550708/Upstream/1623; ENST00000426751/Downstream/11762;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/100678, chr14-CpG: 43/Downstream/8540
Upstream sequence
GAATCTGTATGttgttttttgtttgttttttgagacagagtctcactctgtcacccaggctggagtgcagtggcacaatcttgactcactgcaacctccg
Downstream sequence
cctcctaggttcaattgattctcccacctcagcgtcccaagtagctgggattacaggtgtgagccaccacgcctggctGGAATCTGTACTTTGGAAATGT
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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