Basic Information
VIS ID
TVIS30004989
Fusion event
HIV-PPP1R16A 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
q24.3
Reference genome
GRCh37/hg19
Start
145712558/144487175 (Hg38)
End
145712558/144487175 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8D
Target gene
PPP1R16A
miRNAs that regulate target gene
hsa-mir-1-3p
Nearest miRNA
hsa-mir-10400/Upstream/24636; hsa-mir-6850/Downstream/304756;
Nearest TSS
ENST00000518652/Upstream/8824; ENST00000533829/Downstream/2855;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/8656, chr8-CpG: 111/Downstream/12902
Nearby gene
PPP1R16A(No orient, 9551)
Upstream sequence
ctcccagattcaagcgattctcctacctcagccttcagagtagctgggactacaggtgtgtggcaccacaaccggctaattttttgtatttctagtagag
Downstream sequence
acggggtttcaccctgttggtctcgaactcctgatctcaagcaatccttccccctcagcctcccgaagtgctgggattacaggcgtaagtcactgcgcct
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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