Basic Information
VIS ID
TVIS30005754
Fusion event
HIV-LDHAL6A 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
chr11
Cytoband
p15.1
Reference genome
GRCh37/hg19
Start
18500246/18478699 (Hg38)
End
18500246/18478699 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11C ; FRA11I
Target gene
LDHAL6A
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-5011-5p ; hsa-mir-6817-3p
Nearest miRNA
hsa-mir-210/Upstream/90839; hsa-let-7a-2/Downstream/1096611;
Nearest TSS
ENST00000527297/Upstream/22815; ENST00000511927/Downstream/3032;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/22490, chr11-CpG: 52/Downstream/47814
Upstream sequence
ATAGTTCGTACTATACCAATCTGTTATTCATTCACCTCCCAACTGTTGTTTCTCATATTGCAGAACTTTGTTAAAAAAGGAATAATTTTTAAGTCTTTAC
Downstream sequence
TTTCAGGGCCTCTATGGAATAAATGAAGACATATTCCTTAGTGTCCCATGTATCCTGGGAGAGAATGGTATCACAGACCTCATAAAAGTAAAACTGACTC
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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