Basic Information
VIS ID
TVIS30005514
Fusion event
HIV-LYST 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
q42.3
Reference genome
GRCh37/hg19
Start
235944303/235781003 (Hg38)
End
235944303/235781003 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA1H
Target gene
LYST
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-93-5p ; hsa-mir-92b-3p ; hsa-mir-193a-3p ; hsa-mir-26a-5p
Nearest miRNA
hsa-mir-101-1/Upstream/590887; hsa-mir-1537/Downstream/71997;
Nearest TSS
ENST00000473358/Upstream/28832; ENST00000412098/Downstream/7845;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/129815, chr1-CpG: 113/Downstream/85284
Upstream sequence
AAGTTCTCTGATTTGTTCACATCGCAAAATTTCTTTATTAATATATTTGGAGTAGTCATTGACTGGCTTGCCATACTTACATGGCATTACAGATGTATGG
Downstream sequence
TTGGGTCCACAAGCATACAGATAAAAGGCCTCTTGTGAACCAACCTTAGCTCCTGAATAGCAGAAAAATAAAGTTAGTTATTTAAAACACCCTAACCAGA
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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