Basic Information
VIS ID
TVIS30006342
Fusion event
HIV-LRCH1 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
chr13
Cytoband
q14.13
Reference genome
GRCh37/hg19
Start
47238187/46664052 (Hg38)
End
47238187/46664052 (Hg38)
Orient
+
Location type
Intronic
Target gene
LRCH1
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-6884-3p ; hsa-mir-654-3p ; hsa-mir-5583-3p ; hsa-mir-4517
Nearest miRNA
hsa-mir-2276/Upstream/2467852; hsa-mir-1267/Downstream/3332363;
Nearest TSS
ENST00000623511/Upstream/110792; ENST00000478412/Downstream/15784;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/109481, chr13-CpG: 67/Downstream/132576
Upstream sequence
CCCTGGATATTCATGCTTTTCCAGTGAAATGGCAGGATCCTGGAATTAGGAAGGATGAGAGAGAAAATGTCATTTATAGGATTATATGTTGTAGTCTTGG
Downstream sequence
TTATCCAGATTGGAATTAGGTACATGGTTTGTTTGGGCCTGAAATTTTATAGCCCAGCCTGATTCACCCTGGCATGTCTGAGCTATCTCTTTATTTTTAA
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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