Basic Information
VIS ID
TVIS30004286
Fusion event
HIV-RPS6KA6 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
chrX
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
83317860/84062852 (Hg38)
End
83317860/84062852 (Hg38)
Orient
+
Location type
UTR3
Target gene
RPS6KA6
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-192-3p ; hsa-mir-129-5p ; hsa-mir-2113 ; hsa-mir-4687-3p ; hsa-mir-5010-3p ; hsa-mir-627-3p ; hsa-mir-758-3p ; hsa-mir-7974 ; hsa-mir-889-5p
Nearest miRNA
hsa-let-7f-2/Upstream/5161603; hsa-mir-105-1/Downstream/162900;
Nearest TSS
ENST00000429181/Upstream/201706; ENST00000373173/Downstream/43609;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/552084, chrX-CpG: 95/Downstream/124536
Nearest cancer related gene
RPS6KA6(TSG, No orient, 0)
Upstream sequence
AGCCTAAATTGTATAATTCAGCACTCAGTAATCAACTTTCTCTCTGAATAAAGCAAAATAAAATACATAGCAAATAGTACACCTAACACGCACAAGTAGT
Downstream sequence
TCACTTATATTCACTAAAGAAAACTGTGATATCCTCCAGTTTACATTCATGAATTCTTTCTGTCagtagtagtagtagtagtagtagtagtagtagtagt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate