Basic Information
VIS ID
TVIS30000663
Fusion event
HIV-PFDN2 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
chr1
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
161080045/161110255 (Hg38)
End
161080045/161110255 (Hg38)
Orient
-
Location type
Intronic
Target gene
PFDN2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-210-3p ; hsa-mir-92a-3p ; hsa-mir-3919 ; hsa-mir-6504-3p ; hsa-mir-338-5p ; hsa-mir-5692a ; hsa-mir-3613-3p ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5688 ; hsa-mir-495-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1210176; hsa-mir-1182/Downstream/116931;
Nearest TSS
ENST00000473358/Upstream/10747; ENST00000473918/Downstream/7800;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/11244, chr1-CpG: 44/Downstream/7677
Upstream sequence
tcgagaccagcctggccaacatggtgaaaccccatctctactaaaaatacaaaaaattagtcgggtatggtggcttatgcctgtagtcccagctactcgg
Downstream sequence
gaggctgaggcaaaagaattgcttgcacctgggaggcgggggttgcaatgagccaacaccacaccactgcactccagcctgggtgacagagcaaggctcc
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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