Basic Information
VIS ID
TVIS30011584
Fusion event
HIV-RBM14-RBM4 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
chr11
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
66408550/66641079 (Hg38)
End
66408550/66641079 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RBM14-RBM4
miRNAs that regulate target gene
hsa-mir-1252-5p ; hsa-mir-4747-5p ; hsa-mir-4773 ; hsa-mir-4790-3p ; hsa-mir-5196-5p ; hsa-mir-548v ; hsa-mir-6126 ; hsa-mir-6864-5p ; hsa-mir-8080
Nearest miRNA
hsa-mir-10392/Upstream/991826; hsa-let-7a-2/Downstream/293355;
Nearest TSS
ENST00000527297/Upstream/2144; ENST00000515838/Downstream/2671;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/1859, chr11-CpG: 47/Downstream/2375
Upstream sequence
gctaaaatggtacgtagaacgcaaatattccaaaatctgaGGTCTGAAGCAACAGTGGCAGTTCAGGGGTGGTGATCATGGTGAGTTGCTATCTGAACTC
Downstream sequence
TTCTTTCACCTCCTTTGGGTTCCCAGTGTCAAAAAGAGTGGTGTCCTTTTTTAGCTTAATTAAGCAGGACTGAACaaaaataataaaaaataaaaaaaGC
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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