Basic Information
VIS ID
TVIS30005421
Fusion event
HIV-PBX1 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
chr1
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
164839619/164870382 (Hg38)
End
164839619/164870382 (Hg38)
Orient
+
Location type
Intronic
Target gene
PBX1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-149-5p ; hsa-mir-196b-5p ; hsa-mir-198 ; hsa-mir-1247-3p ; hsa-mir-3074-5p ; hsa-mir-4722-3p ; hsa-mir-617 ; hsa-mir-6505-3p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-6882-3p
Nearest miRNA
hsa-mir-101-1/Upstream/2527742; hsa-mir-1182/Downstream/1037539;
Nearest TSS
ENST00000473358/Upstream/57654; ENST00000457106/Downstream/340245;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/293702, chr1-CpG: 29/Downstream/247137
Nearby gene
PBX1(No orient, 18559)
Nearest cancer related gene
PBX1(OG, No orient, 0)
Upstream sequence
ttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttcgagatgaagtcttgctctgtc
Downstream sequence
tccccaggctggagtgcagtggcacgatcttagctcactgcaacctctgcctcctgggttcaagcaattctcttgtctcagtctcccaagtaatgggatt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate