Basic Information
VIS ID
TVIS30002329
Fusion event
HIV-USP3 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
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
63834577/63542378 (Hg38)
End
63834577/63542378 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
USP3
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-26b-5p ; hsa-mir-18a-3p ; hsa-mir-10b-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-26a-5p ; hsa-mir-670-3p ; hsa-mir-4279 ; hsa-mir-202-5p ; hsa-mir-337-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-10393/Upstream/718337; hsa-mir-11181/Downstream/328552;
Nearest TSS
ENST00000557528/Upstream/5240; ENST00000558925/Downstream/2247;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/36939, chr15-CpG: 121/Downstream/58212
Upstream sequence
attaagtgttttttattttaattaatatttaaatagcaccatgtgactgctagctactattggacagtgcagCCTCAAACTATTAAAATTTAACATTAAG
Downstream sequence
TATATTAATGTTATAAACTTTcaaaaccttaagatagaaatctaacagaaactccaaaaacaaaataagccaattttactaaataaaatactgtagttgg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate