Basic Information
VIS ID
TVIS30004003
Fusion event
HIV-PPP1R9A 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
chr7
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
94907173/95277861 (Hg38)
End
94907173/95277861 (Hg38)
Orient
+
Location type
Intronic
Target gene
PPP1R9A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-130b-3p ; hsa-mir-33a-5p ; hsa-mir-181a-5p ; hsa-mir-3121-3p
Nearest miRNA
hsa-mir-10525/Upstream/1560856; hsa-mir-10399/Downstream/941801;
Nearest TSS
ENST00000635602/Upstream/63529; ENST00000608730/Downstream/24542;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/369696, chr7-CpG: 19/Downstream/46596
Upstream sequence
ACAAAAGCAGGAAACATTTAGTTGTCAGAGCTTGTTCACCCCTTAAAATGTATACCAAAGGGTAAAATAAAATCCTATTCTGTATTCTGGAGTAAGTAGC
Downstream sequence
CACTGATGTCAGTGGAGCATCTACTTTGGAGCTCTGTAGATAAGTTTCCAGTGTAGTCACGGAATGGAAAACTCTGTGAGATGTGTGTATCTCAGATGGG
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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