Basic Information
VIS ID
TVIS30001653
Fusion event
HIV-LMNA 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
q22
Reference genome
GRCh37/hg19
Start
156089401/156119610 (Hg38)
End
156089401/156119610 (Hg38)
Orient
+
Location type
Intronic
Target gene
LMNA
miRNAs that regulate target gene
hsa-mir-340-5p ; hsa-mir-9-5p ; hsa-mir-124-3p ; hsa-mir-296-3p ; hsa-mir-615-3p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-205-5p
Nearest miRNA
hsa-mir-101-1/Upstream/168274; hsa-mir-1182/Downstream/300731;
Nearest TSS
ENST00000473358/Upstream/4888; ENST00000502357/Downstream/3532;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/4263, chr1-CpG: 31/Downstream/16306
Upstream sequence
tggcctcccaaagtgctgggatgtataggcatgagctaccgcacctggTACCCCCTGCCCCTTCTCTGTCTCTTTCTAGTCTGTAGCCCAAGGGATTTGG
Downstream sequence
ATACCCAAGTGCAGGCAGAATGGGAAGGTTGTAAGCACCAGGGAAGCCTGTCTGGAGTCCAGGCTTGCAGCTGGGCCCCACCCCAGGCAAGGCAGCTGGG
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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