Basic Information
VIS ID
TVIS30005281
Fusion event
HIV-LRRC8B 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
90016418/89550859 (Hg38)
End
90016418/89550859 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
LRRC8B
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-423-3p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-889-3p ; hsa-mir-3529-3p ; hsa-mir-204-3p ; hsa-mir-3153 ; hsa-mir-320e ; hsa-mir-4646-5p ; hsa-mir-548ao-5p ; hsa-mir-548ax ; hsa-mir-6733-5p ; hsa-mir-6739-5p ; hsa-mir-578 ; hsa-mir-643 ; hsa-mir-4778-3p ; hsa-mir-4668-5p ; hsa-mir-498 ; hsa-mir-4284 ; hsa-mir-4772-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-7113-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-4308
Nearest miRNA
hsa-mir-101-1/Upstream/3193172; hsa-mir-11399/Downstream/4295973;
Nearest TSS
ENST00000473358/Upstream/25956; ENST00000358200/Downstream/17382;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/25432, chr1-CpG: 123/Downstream/81812
Upstream sequence
ttccttcattcctggtcagtctcactgatactaccatggtcttcactctcactgcttcagcattgaatgactgcagtaggttcctgcctggtttccttac
Downstream sequence
cttcatttcccccggcccccGATCCTGCCCCATTGTATCTCTCATGCCTTACCAGGTTAGTTTTCCTAAAATATTGCTTGCATTCTATTTTAGAATCTAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate