Basic Information
VIS ID
TVIS30003460
Fusion event
HIV-PPARG 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
chr3
Cytoband
p25.2
Reference genome
GRCh37/hg19
Start
12408956/12367457 (Hg38)
End
12408956/12367457 (Hg38)
Orient
+
Location type
Intronic
Target gene
PPARG
miRNAs that regulate target gene
hsa-mir-20b-5p ; hsa-mir-27b-3p ; hsa-mir-138-5p ; hsa-mir-130a-3p ; hsa-mir-130b-3p ; hsa-mir-20a-5p ; hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-27a-3p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-12127/Upstream/1972895; hsa-let-7g/Downstream/3128782;
Nearest TSS
ENST00000440867/Upstream/15888; ENST00000396999/Downstream/12249;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/78623, chr3-CpG: 61/Downstream/116793
Nearest cancer related gene
PPARG(TSG, No orient, 0)
Upstream sequence
ATATGAAGGTACTTTTAGCAGAGGAACCAAGCTTGAGCTAGTTTGACCATAATGAATTTTTGCTGAGGAAGCAGAAGAAATGTTTATATTGGTGAGGGCA
Downstream sequence
TAATCCTGTAATCTTTTCTGTGTCCTGATACCTCAGGACCAGCGTAAGCAAACTCCCTAGACAAGATGTGGCTCATGCAAGAGGAAATATGCTTTTGAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate