Basic Information
VIS ID
TVIS30011825
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
33236235/32662098 (Hg38)
End
33236235/32662098 (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/8499594; hsa-mir-1267/Downstream/7001936;
Nearest TSS
ENST00000623511/Upstream/75529; ENST00000481616/Downstream/38886;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/74400, chr13-CpG: 157/Downstream/353692
Nearest cancer related gene
PDS5B(TSG, No orient, 0)
Upstream sequence
ttacagtaaatgtaaatgacctgtatttaccatgtaagacaggttctcagattggattgaacataatctgggtgattatttttactaagaaatacaaata
Downstream sequence
aaacacactcacaaaaggtcgaatataaaaggatgggaaaagtacttgccaggcaaatataaaccaaaagaaaaccaagatagcttatattagacatagt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate