Basic Information
VIS ID
TVIS30000841
Fusion event
HIV-PCOLCE2 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr3
Cytoband
q23
Reference genome
GRCh37/hg19
Start
142567295/142848453 (Hg38)
End
142567295/142848453 (Hg38)
Orient
+
Location type
Exonic
Target gene
PCOLCE2
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-182-5p
Nearest miRNA
hsa-let-7g/Upstream/8410547; hsa-mir-1224/Downstream/8717423;
Nearest TSS
ENST00000440867/Upstream/109; ENST00000479792/Downstream/40292;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/123317, chr3-CpG: 103/Downstream/39900
Upstream sequence
CCAATGCGCTGGCCATTGGCATGGCCATTGTACACATCCACAAAGTCATAGCGGCACAGGTTGTCACTCTCGAGGTCTATGAATCGGAAATTGAGAACGA
Downstream sequence
CTACTTTTCCTTCGGGAACCTGCCAAGAAAAGCGCCAATTAGAAAACTGTCATGAAAACAATATCTGAGGCTTTGACATCTAGTCACTTACTTAAGTGTG
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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