Basic Information
VIS ID
TVIS30012467
Fusion event
HIV-LINC00907 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
q12.3
Reference genome
GRCh37/hg19
Start
40162321/42582356 (Hg38)
End
40162321/42582356 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC00907
Nearest miRNA
hsa-mir-1-2/Upstream/2905577; hsa-mir-122/Downstream/2387726;
Nearest TSS
ENST00000575820/Upstream/356392; ENST00000591940/Downstream/391739;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/2740491, chr18-CpG: 180/Downstream/2096662
Upstream sequence
tcctctattacctaaatagttggtgaagaaagaccagaaaaatccataTGCAAATTCTCTttcttccctcattccactgttgagtgtcctgtcatataat
Downstream sequence
cttacttagatgcaagggaagtttgaaatgcaatgttcttgtgcactcataaggttaaataagattggtgaacatttagctaCTATTATATTTTTCAATC
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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