Basic Information
VIS ID
TVIS30012289
Fusion event
HIV-TOP2A 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
chr17
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
38552907/40396655 (Hg38)
End
38552907/40396655 (Hg38)
Orient
+
Location type
Intronic
Target gene
TOP2A
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-21-5p ; hsa-mir-1226-3p ; hsa-mir-708-5p ; hsa-mir-186-5p ; hsa-mir-7-5p ; hsa-mir-218-5p ; hsa-mir-203a-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-3668 ; hsa-mir-4524b-3p ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-5688 ; hsa-mir-495-3p ; hsa-mir-561-3p
Nearest miRNA
hsa-mir-1180/Upstream/202992; hsa-mir-10226/Downstream/1120509;
Nearest TSS
ENST00000595228/Upstream/4554; ENST00000269593/Downstream/2606;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/32643, chr17-CpG: 47/Downstream/20809
Upstream sequence
TACATCTTAAAAACTAGTGATAAATTGCTCCATAACCTAGTATACTATCAACAATAGTGAAGATGTAATTAAAACACACCTTGAAAAGGAAGGTGtggag
Downstream sequence
acagaaggactgggttttattcctgattctaccacttaACCTTTTTGAGGAAAACAAGGGAGAAACTAAAAATAAAACATGTATATACATATATATTTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate