Basic Information
VIS ID
TVIS30003639
Fusion event
HIV-PPARGC1A 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
chr4
Cytoband
p15.2
Reference genome
GRCh37/hg19
Start
24148561/24146938 (Hg38)
End
24148561/24146938 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
PPARGC1A
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-421 ; hsa-mir-425-3p ; hsa-mir-378a-5p ; hsa-let-7b-5p ; hsa-mir-130b-3p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-190a-3p ; hsa-mir-4775 ; hsa-mir-3124-3p ; hsa-mir-5011-5p ; hsa-mir-32-3p ; hsa-mir-5585-3p ; hsa-mir-3941 ; hsa-mir-8064 ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-485-3p ; hsa-mir-485-5p ; hsa-mir-130a-3p ; hsa-mir-4311 ; hsa-mir-4524a-3p ; hsa-mir-4524b-3p ; hsa-mir-4668-5p
Nearest miRNA
hsa-mir-12113/Upstream/1631553; hsa-mir-1243/Downstream/373254;
Nearest TSS
ENST00000502981/Upstream/242849; ENST00000569621/Downstream/383141;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1630513, chr4-CpG: 266/Downstream/323139
Nearby gene
PPARGC1A(No orient, 256861)
Upstream sequence
tctccagcccacttccttgttattcttttccacatcacttattatctaatatggtattattatttgtattgcctgtctcccctctgtagaatgtaagttt
Downstream sequence
catgaggtcaggaatataactgtcacattcatcactatagcccccatgcctggaacagtgcttgccaccaagtaacaaccccataaagacttgctCAGTC
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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