Basic Information
VIS ID
TVIS30002386
Fusion event
HIV-LINC01578 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
q26.1
Reference genome
GRCh37/hg19
Start
93439212/92895982 (Hg38)
End
93439212/92895982 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC01578
Nearest miRNA
hsa-mir-10393/Upstream/2889141; hsa-mir-1302-10/Downstream/8417;
Nearest TSS
ENST00000557528/Upstream/9779; ENST00000627622/Downstream/4207;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/12461, chr15-CpG: 37/Downstream/8291
Upstream sequence
TCCTTATTAACAAAATTCTCACTTTTGGCTTTGGATTGGCTTTGCAGGAGTGCAGATTGATCATAGCTTTTTTCATGTCCTAAGAGTTGTCAGAGTTTTC
Downstream sequence
TCTTGTAGCATTTTTTTCTTTACTTTTTTTTTTTACTATCTTTAAATATATGACTGTAAGAGTATGATAAATATGCTGTTTTCTAATCTCTGCTGTTGTC
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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