Basic Information
VIS ID
TVIS30006321
Fusion event
HIV-LINC02343 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
chr13
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
34930059/34355922 (Hg38)
End
34930059/34355922 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA13A
Target gene
LINC02343
Nearest miRNA
hsa-mir-2276/Upstream/10193418; hsa-mir-1267/Downstream/5308112;
Nearest TSS
ENST00000623511/Upstream/7879; ENST00000497540/Downstream/178428;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/537566, chr13-CpG: 79/Downstream/586312
Nearby gene
LINC00457(No orient, 79532)
Upstream sequence
tgggactacaggtgcccgccaccatgcccagctaatttttttttttttgtatttttagtagagacggggtttcaccatgttagacaggatggtctcgatc
Downstream sequence
tcccgacatcatgatccacccgcctcggcctcccaaagtgctgggattacaggcgtgagccaccgcgcccagGCttttttttttttttgagacgcagtct
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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