Basic Information
VIS ID
TVIS30010191
Fusion event
HIV-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
66429618/66662147 (Hg38)
End
66429618/66662147 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RBM4
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-let-7e-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-10392/Upstream/1012894; hsa-let-7a-2/Downstream/272287;
Nearest TSS
ENST00000527297/Upstream/18397; ENST00000550837/Downstream/3889;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/18031, chr11-CpG: 55/Downstream/15379
Nearest cancer related gene
RBM4(TSG, No orient, 0)
Upstream sequence
TGTCCTACTCAACAGTACTCTTTTGGTGTGAAAGGTTTTCTAAAATAAAAATTATGCAATTCTGCAGGGCTTTTTCTCCACCTATGAGCAGCTTATTTTA
Downstream sequence
CTATCTAAACTgctgtccaatagagtagccactagctacatgtagctaattataattaaataaaaaactcagtttctcagtggaataaaccacatttcag
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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