Basic Information
VIS ID
TVIS30004013
Fusion event
HIV-LHFPL3 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
chr7
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
104314295/104673848 (Hg38)
End
104314295/104673848 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7F
Target gene
LHFPL3
miRNAs that regulate target gene
hsa-mir-4709-3p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-4635 ; hsa-mir-8067 ; hsa-mir-6508-5p ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-1269b ; hsa-mir-1269a ; hsa-mir-4497 ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-5196-5p ; hsa-mir-4271 ; hsa-mir-4747-5p ; hsa-mir-6787-5p ; hsa-mir-663a ; hsa-mir-1908-5p ; hsa-mir-4515 ; hsa-mir-1288-3p ; hsa-mir-4740-5p ; hsa-mir-3202 ; hsa-mir-4749-5p ; hsa-mir-3195 ; hsa-mir-4706 ; hsa-mir-3179 ; hsa-mir-525-3p ; hsa-mir-524-3p ; hsa-mir-342-3p ; hsa-mir-6793-3p ; hsa-mir-574-3p ; hsa-mir-8485 ; hsa-mir-3939 ; hsa-mir-361-3p
Nearest miRNA
hsa-mir-10525/Upstream/2202317; hsa-mir-10399/Downstream/9979497;
Nearest TSS
ENST00000635602/Upstream/345148; ENST00000415513/Downstream/267215;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/344337, chr7-CpG: 45/Downstream/310042
Upstream sequence
AGCATCCTCAATTAGTGGCAAGAGCTCAGAACTGAATTAGAACAATAAAGACAGATATTTCTGTTTTGAAGTTAGAGTCTTAGTTAAACCTTAGAACAAG
Downstream sequence
ATAAAAGCACCTTTAACCACTCTGTTGGAAATGTATCTATGTGATTCTTAATGCTCATCTGCATAGTTCATCAAATGATACTGCTTGACCCATTTAAGAA
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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