Basic Information
VIS ID
TVIS30007291
Fusion event
HIV-LOC727896 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
p11.31
Reference genome
GRCh37/hg19
Start
2944649/2944651 (Hg38)
End
2944649/2944651 (Hg38)
Orient
-
Location type
ncRNA_exonic
Target gene
LOC727896
Nearest miRNA
hsa-mir-8078/Upstream/2832312; hsa-mir-1-2/Downstream/940702;
Nearest TSS
ENST00000575820/Upstream/23685; ENST00000581488/Downstream/3587;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/31342, chr18-CpG: 105/Downstream/67898
Upstream sequence
gtgttagccaggatggtctcgatctcctgacctcgtgatctgcccgcctcggcctcccaaagtgctgggattacaggcatgagccaccgcgcccggccTC
Downstream sequence
CACAAACCTTTTAAGTCTACAATTTTACATAGTTTTCCATCAGGGAGGCAAGATATATATAATTTCTTTTTATATTTAACTAAAGGTTTTAAGAGGGCTT
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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