Basic Information
VIS ID
TVIS30009813
Fusion event
HIV-PBX3 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
chr9
Cytoband
q33.3
Reference genome
GRCh37/hg19
Start
128657226/125894947 (Hg38)
End
128657226/125894947 (Hg38)
Orient
+
Location type
Intronic
Target gene
PBX3
miRNAs that regulate target gene
hsa-mir-495-3p ; hsa-mir-615-3p ; hsa-mir-93-5p ; hsa-mir-26b-5p ; hsa-mir-760 ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-320a ; hsa-let-7c-5p ; hsa-mir-98-5p ; hsa-mir-33a-3p ; hsa-mir-144-3p ; hsa-mir-497-5p
Nearest miRNA
hsa-let-7a-1/Upstream/1201149; hsa-mir-12126/Downstream/1795740;
Nearest TSS
ENST00000422679/Upstream/29676; ENST00000441473/Downstream/162633;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/4930, chr9-CpG: 16/Downstream/120531
Upstream sequence
TGAGTTGTTTTACTAGCTGTGAACATGCCGCTTTATAGCAGTTGTGAAAATGGACTTTGCTAGTGTGTGGGAAAGGAAATAACATTGCAGTATACAAGGG
Downstream sequence
TAGTAAAAAATCTCTATAAATAATTTTTCAGACTGAGGAATATTCTCATTTAAACAGGCAGAATGGGTCGTGATTTTGGGTAGGTGTCAGTCTCCTCAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate