Basic Information
VIS ID
TVIS30002219
Fusion event
HIV-LRRC9 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
60488141/60021423 (Hg38)
End
60488141/60021423 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA14B
Target gene
LRRC9
miRNAs that regulate target gene
hsa-mir-552-5p
Nearest miRNA
hsa-mir-208a/Upstream/374403; hsa-mir-1185-1/Downstream/627225;
Nearest TSS
ENST00000550708/Upstream/17786; ENST00000568404/Downstream/6633;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/101312, chr14-CpG: 85/Downstream/70199
Upstream sequence
taataaacctaattgtttaattaggttgcttggcttttcattattaagtgtctttatactgggggtaagccctttattaaaaaatgatttacagatattg
Downstream sequence
tctctcaatctgtggcctctcttttcattttcttaaatgatgtctttgaagaaattttaattttgataaagtctaatttaccatcttttctcttacagat
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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