Basic Information
VIS ID
TVIS30010268
Fusion event
HIV-PPP1R12A 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
chr12
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
80288605/79894825 (Hg38)
End
80288605/79894825 (Hg38)
Orient
+
Location type
Intronic
Target gene
PPP1R12A
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-96-5p ; hsa-mir-30a-5p ; hsa-mir-93-3p ; hsa-mir-10a-5p ; hsa-mir-30c-5p ; hsa-mir-448 ; hsa-mir-5007-3p ; hsa-mir-1179 ; hsa-mir-5700 ; hsa-mir-7150 ; hsa-mir-4777-5p ; hsa-mir-526a ; hsa-mir-523-5p ; hsa-mir-522-5p ; hsa-mir-520c-5p ; hsa-mir-519c-5p ; hsa-mir-519b-5p ; hsa-mir-519a-5p ; hsa-mir-518f-5p ; hsa-mir-518e-5p ; hsa-mir-518d-5p ; hsa-mir-4736 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-3616-3p ; hsa-mir-4645-3p ; hsa-mir-4761-3p ; hsa-mir-3662 ; hsa-mir-182-5p ; hsa-mir-1271-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p
Nearest miRNA
hsa-let-7i/Upstream/475504; hsa-mir-1178/Downstream/937708;
Nearest TSS
ENST00000382841/Upstream/21953; ENST00000643417/Downstream/19086;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/203451, chr12-CpG: 76/Downstream/39809
Upstream sequence
atgtaatttaacttttttctattaactcattattgcatcagttattacactctgctgttacacaacaatgtccttaTAACCAATAGCTTACGCAGCTAAA
Downstream sequence
ACACCTAACACGCTTTTTGGGAATTATGTTTGCTTTTAGCAGGTTGTCCGCCTTTCGTCTTGCTTTCAGCTGTCTCCTCTTAAAACTATCTGACAACTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate