Basic Information
VIS ID
TVIS30001864
Fusion event
HIV-PLAAT4 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
q12.3
Reference genome
GRCh37/hg19
Start
63310181/63542709 (Hg38)
End
63310181/63542709 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
PLAAT4
miRNAs that regulate target gene
hsa-mir-30e-3p
Nearest miRNA
hsa-mir-129-2/Upstream/749938; hsa-let-7a-2/Downstream/799140;
Nearest TSS
ENST00000527297/Upstream/4313; ENST00000542805/Downstream/20674;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/51377, chr11-CpG: 73/Downstream/70962
Nearest cancer related gene
PLAAT4(TSG, No orient, 0)
Upstream sequence
CTTCCGTCTTTGGTGTTTATATCTGTCTGGTTTTAGCAGGTCTCTCTGATTCCTGACTCACAGCTCCTCTCCTTCACTAATATTCAAGTGTGCTGCTTGC
Downstream sequence
CTAACTCCTCATTCCTTCTCCTTGAATTTCACTTTACAATTGCACTAGGTTCTATCATCGTTGGCCACAGATTACCACAAAACATAATTTCTTAAATTCT
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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