Basic Information
VIS ID
TVIS30007334
Fusion event
HIV-LMAN1 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
chr18
Cytoband
q21.32
Reference genome
GRCh37/hg19
Start
57015773/59348541 (Hg38)
End
57015773/59348541 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA18B
Target gene
LMAN1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-18a-3p ; hsa-mir-3148 ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-4668-5p ; hsa-mir-873-5p ; hsa-mir-5582-3p ; hsa-mir-34a-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-4446-5p ; hsa-mir-3156-3p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-188-3p ; hsa-mir-6072 ; hsa-mir-6891-3p ; hsa-mir-4301 ; hsa-mir-483-3p ; hsa-mir-3591-5p ; hsa-mir-4460 ; hsa-mir-4727-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-7-2-3p ; hsa-mir-5688 ; hsa-mir-7-1-3p ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-1-2/Upstream/897383; hsa-mir-5011/Downstream/7733043;
Nearest TSS
ENST00000575820/Upstream/14850; ENST00000591331/Downstream/3048;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/39613, chr18-CpG: 65/Downstream/10292
Upstream sequence
atttctttcacctaaaatttggcaagttcttctaaaaatatggaaaataggatcttccctcccttcttctctgggttgtcaggaacaatccatgtatttg
Downstream sequence
aaaatatttaaaactacaatgtgtcatataaacataaAATGGCATTGACGTTGAATGGTAATTTATCACCTTATGTGGAAAAAAATGGTAACTATGGTTT
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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