Basic Information
VIS ID
TVIS30010789
Fusion event
HIV-RBM6 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
50003073/49965640 (Hg38)
End
50003073/49965640 (Hg38)
Orient
+
Location type
Intronic
Target gene
RBM6
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-221-3p ; hsa-let-7a-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-12127/Upstream/159395; hsa-let-7g/Downstream/261796;
Nearest TSS
ENST00000440867/Upstream/24955; ENST00000464013/Downstream/15921;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/24877, chr3-CpG: 69/Downstream/123179
Nearest cancer related gene
RBM6(TSG, No orient, 0)
Upstream sequence
gcgcctgtagtcccagccccttgggaagctgaggcaggagaatggcgtgaacccgggaggcggagcttgcagtgagccaatatcgcgccactgcactcca
Downstream sequence
gcctgggcgacagagcgagactccgtctcaaaaaaaaaaaaaagaagaaCATCTAAACTTGCTCCTCTTATGATGAACCACATAGACATAACTAGTGTTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate