Basic Information
VIS ID
TVIS30005282
Fusion event
HIV-LRRC8C 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
chr1
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
90106562/89641003 (Hg38)
End
90106562/89641003 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
LRRC8C
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-101-1/Upstream/3283316; hsa-mir-11399/Downstream/4205829;
Nearest TSS
ENST00000473358/Upstream/7822; ENST00000416805/Downstream/122542;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/7270, chr1-CpG: 30/Downstream/122182
Upstream sequence
aaGTGAAAGGAAATAATCAAAGATAAGCAATTAAATTCATTTAAGGAAAGCACAGGGTGGTACATTGAATAAAACCAAGCAAATGACATAAATATACTAC
Downstream sequence
atttgtatttgttttgttaaatttgtttctgtagtttccagtatttagaatagtatatgacatgaagcaaacatttaatacacatttgctgaataaatAT
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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