Basic Information
VIS ID
TVIS30002220
Fusion event
HIV-SALRNA1 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
q23.1
Reference genome
GRCh37/hg19
Start
61105940/60639222 (Hg38)
End
61105940/60639222 (Hg38)
Orient
+
Location type
ncRNA_exonic
Fragile sites / regions
FRA14B
Target gene
SALRNA1
Nearest miRNA
hsa-mir-208a/Upstream/992202; hsa-mir-1185-1/Downstream/9426;
Nearest TSS
ENST00000550708/Upstream/6; ENST00000555545/Downstream/10240;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/1277, chr14-CpG: 67/Downstream/3014
Upstream sequence
CATCTGGACTTGCTTCTAAGATATATTGATACTGGAAAAGTTAGGCAAGATGGCTTGGGAATCTTCAACCAGACTGATTTTTTTTTTTTTTTTAAGTAGA
Downstream sequence
AATATGGTAAGGGGCCAGTATTGTCATTCTGCCTTTCAGTTCTTCCATAAAAGTTTtgtgtgcatgtgtgtgtgtgtgtgtgagagagagagagagagag
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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