Basic Information
VIS ID
TVIS30012615
Fusion event
HIV-PPP5C 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
chr19
Cytoband
q13.32
Reference genome
GRCh37/hg19
Start
46868737/46365480 (Hg38)
End
46868737/46365480 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
PPP5C
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-99b-3p ; hsa-mir-615-3p
Nearest miRNA
hsa-mir-10395/Upstream/346431; hsa-let-7e/Downstream/343802;
Nearest TSS
ENST00000633603/Upstream/18372; ENST00000467902/Downstream/10124;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/18059, chr19-CpG: 44/Downstream/46574
Upstream sequence
gtgctgggattacaggcgtgagccacacacccagccTCCTATAATTTTAGAATTTCCTTCTCAAAAGTGACCAAGGCCAGGACAgtatattgcgtcgagg
Downstream sequence
tgtgccgctttgtgggtgtcactcttccaggtgtcaccagtgaatcgtgaggcatgttcttatgtgtcttggaatctcttatcaccttgtggcagcagag
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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