Basic Information
VIS ID
TVIS30005422
Fusion event
HIV-LMX1A 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
q23.3
Reference genome
GRCh37/hg19
Start
165295740/165326503 (Hg38)
End
165295740/165326503 (Hg38)
Orient
-
Location type
Intronic
Target gene
LMX1A
miRNAs that regulate target gene
hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-342-3p ; hsa-mir-377-3p ; hsa-mir-4743-3p ; hsa-mir-6888-3p ; hsa-mir-6868-3p ; hsa-mir-3182 ; hsa-mir-3120-5p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2983863; hsa-mir-1182/Downstream/581418;
Nearest TSS
ENST00000473358/Upstream/108088; ENST00000294818/Downstream/29243;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/90233, chr1-CpG: 49/Downstream/25963
Upstream sequence
AATGTGTTCCTCTCTCTCCTGCTTTCTTTCCCTTTGGAGGAATCAATGGAGACGGAATTCTTTTAGAACTGGTCAATGGTATTAAACAAGTGGGGAAAGG
Downstream sequence
ATCAcagggcagcagggccttacaattcatctaggccaacttctcattttattcatgaagaaactgaagcccagcaaagtcaagtgtgcctgggccagct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate