Basic Information
VIS ID
TVIS30003523
Fusion event
HIV-RBM5 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
50128856/50091423 (Hg38)
End
50128856/50091423 (Hg38)
Orient
+
Location type
Intronic
Target gene
RBM5
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-320b ; hsa-mir-186-5p ; hsa-mir-17-3p ; hsa-mir-17-5p ; hsa-mir-218-5p ; hsa-mir-4448
Nearest miRNA
hsa-mir-12127/Upstream/285178; hsa-let-7g/Downstream/136013;
Nearest TSS
ENST00000440867/Upstream/1053; ENST00000462025/Downstream/2295;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/1652, chr3-CpG: 132/Downstream/63115
Nearest cancer related gene
RBM5(TSG, No orient, 0)
Upstream sequence
TTATGATTGCACAGCAGTTTTATGAATCTGGTAAACAGTTTACAAAAGGTGTATTTTATCTGTGGTCAAATAGGTTTAAGCCTCTTGTTATTAGGTTTTC
Downstream sequence
CCATGAAGCCCAGTGCTGCCCTTTAGCCAAAAATAAACCAGATGTTATAAGAAGAGTGTTCTCTTAAGGGGTGCTAGTTTTGGGTAACTATCCAGTTGTA
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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