Basic Information
VIS ID
TVIS30006319
Fusion event
HIV-PDS5B 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
chr13
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
33332200/32758062 (Hg38)
End
33332200/32758062 (Hg38)
Orient
+
Location type
Intronic
Target gene
PDS5B
miRNAs that regulate target gene
hsa-mir-27a-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-2276/Upstream/8595558; hsa-mir-1267/Downstream/6905972;
Nearest TSS
ENST00000623511/Upstream/57078; ENST00000447833/Downstream/107;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/170364, chr13-CpG: 157/Downstream/257728
Nearest cancer related gene
PDS5B(TSG, No orient, 0)
Upstream sequence
TTTTTTTTTCTTCCTGGAGTTATATTATCTAGGTTTGTTATATTTATATTTAGAATTATTGTATCTATATTTAACAAAGGATGAttttcttctatatttc
Downstream sequence
ttttttccttttttttttttttAGATGTCTTTGGTTTGTTCTGGAAATATTAATGGCTAAAAATGAAAATAACAGTCACGCTTTTATCAGAAAGATGGTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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