Basic Information
VIS ID
TVIS30011710
Fusion event
HIV-PCED1B 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
chr12
Cytoband
q13.11
Reference genome
GRCh37/hg19
Start
47598107/47204324 (Hg38)
End
47598107/47204324 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
PCED1B
miRNAs that regulate target gene
hsa-mir-7-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/16433; hsa-let-7i/Downstream/159862;
Nearest TSS
ENST00000382841/Upstream/124373; ENST00000551777/Downstream/12263;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/123987, chr12-CpG: 44/Downstream/30927
Upstream sequence
aagtgtgagccaccacgcccaaccCccatatgaatttaaaattttttttttctaattatgtgaagaatgtcaatggtagtttaatgggaatagcattgaa
Downstream sequence
tctataaattgctttgggcagtatggtcattttcatgatattgattcttcctatccatgagcatggaatgcttttccatttgtttatgtcctctctgatt
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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