Basic Information
VIS ID
TVIS30005492
Fusion event
HIV-LYPLAL1 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
q41
Reference genome
GRCh37/hg19
Start
219379874/219206532 (Hg38)
End
219379874/219206532 (Hg38)
Orient
-
Location type
Intronic
Target gene
LYPLAL1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-7-1-3p ; hsa-mir-7-2-3p ; hsa-mir-30b-5p ; hsa-mir-194-3p ; hsa-mir-30e-5p ; hsa-mir-511-3p ; hsa-mir-1257 ; hsa-mir-3074-3p ; hsa-mir-5094 ; hsa-mir-5693 ; hsa-mir-8062 ; hsa-mir-8079 ; hsa-mir-1245a
Nearest miRNA
hsa-mir-101-1/Upstream/7128847; hsa-mir-1182/Downstream/911321;
Nearest TSS
ENST00000473358/Upstream/7989; ENST00000481007/Downstream/3810;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/32302, chr1-CpG: 21/Downstream/406460
Upstream sequence
GTTAAATTTTCTTCTGTTAGGAAAAAATACACAAAGTCCCTTTTCACAGTAGTGTCCTATGCTAAAGGTCATTGTATTGTCAAAGACGGCTAGTGAGGAG
Downstream sequence
TTGCAGATTACCTCACAAAATCATAAATGGGAAAGGGACTTAGATTAAATCTTAAAATAATAATATTTCAATGAGTATATTTTTCTTCATTGTAACTTAA
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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