Basic Information
VIS ID
TVIS30011041
Fusion event
HIV-PCM1 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
chr8
Cytoband
p22
Reference genome
GRCh37/hg19
Start
17803845/17946336 (Hg38)
End
17803845/17946336 (Hg38)
Orient
+
Location type
Intronic
Target gene
PCM1
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-129-5p ; hsa-mir-8055
Nearest miRNA
hsa-mir-124-1/Upstream/264679; hsa-mir-10400/Downstream/4298630;
Nearest TSS
ENST00000518652/Upstream/9160; ENST00000517836/Downstream/11322;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/22573, chr8-CpG: 103/Downstream/137454
Upstream sequence
TTCCATTTTATGTCATCAGACTCAGATGAATGAGCATAATTTAAGAGGAAAATAATGATGCCTTTGATGACGAATATAAAATTCGTTATTTTCTTAGATG
Downstream sequence
TCTGATAATATGATGTGATTAAATGAAAATCTTTTTACATAAGATTATCAAATAAAAAATGTATTTTTAAAATTTCAGTCCTTTGTTAGAAATAGTAGGT
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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