Basic Information
VIS ID
TVIS30014116
Fusion event
HIV-SMARCC1 integration
Validated
Yes
Detection method
invPCR
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2007
PubMed ID
17262715
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
47667238/47625748 (Hg38)
End
47667238/47625748 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMARCC1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-34a-5p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-29b-3p ; hsa-let-7f-5p ; hsa-let-7c-5p ; hsa-mir-320c ; hsa-mir-544a ; hsa-mir-6738-3p ; hsa-mir-570-3p ; hsa-mir-4793-3p ; hsa-mir-3130-3p ; hsa-mir-3140-5p ; hsa-mir-4705 ; hsa-mir-34b-3p
Nearest miRNA
hsa-mir-12127/Upstream/2763767; hsa-let-7g/Downstream/223807;
Nearest TSS
ENST00000440867/Upstream/14950; ENST00000472718/Downstream/52617;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/46107, chr3-CpG: 109/Downstream/155683
Nearest cancer related gene
SMARCC1(TSG, No orient, 0)
Upstream sequence
ctcctatctcataccacccagaaaaattaacttagtggatcatagatctaaatataaaagtatacactaaaaaattcttagaagaaaaaacaaagtatat
Downstream sequence
ctaaatgatcttagcttaagccaaagatttcaagacatgtaaaaagcacaaatgataaaagagaaaattaggttggacctcatcaaattaaaaacatttg
Reference
Ikeda, T., et al. Recurrent HIV-1 integration at the BACH2 locus in resting CD4+ T cell populations during effective highly active antiretroviral therapy. J Infect Dis,2007, 195(5): 716-725.
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