Basic Information
VIS ID
TVIS30008975
Fusion event
HIV-RANBP9 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
chr6
Cytoband
p23
Reference genome
GRCh37/hg19
Start
13700923/13700691 (Hg38)
End
13700923/13700691 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6A
Target gene
RANBP9
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-196a-5p ; hsa-mir-591
Nearest miRNA
hsa-mir-3691/Upstream/3260897; hsa-mir-10398/Downstream/2440865;
Nearest TSS
ENST00000381078/Upstream/67936; ENST00000607518/Downstream/10873;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/85020, chr6-CpG: 217/Downstream/10056
Nearest cancer related gene
RANBP9(TSG, No orient, 0)
Upstream sequence
ctcatagcaacatgtatctctcctgcacatttacacacttaacactcacgtttaattattttttccctgCGTTTTAATTCCTGAACCTCTTTATTCCCGC
Downstream sequence
TAACTTCCACTCTAACTTCAATCATTCCTtcttgaagaagcaaaagctcaagacccagagtctaaagctgcaacagaccaagccacctgtaatatcgggc
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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