Basic Information
VIS ID
TVIS30000219
Fusion event
HIV-SMARCC1 integration
Validated
No
Detection method
NG-SGS
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30024859
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
47636102/47594612 (Hg38)
End
47636102/47594612 (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/2732631; hsa-let-7g/Downstream/254943;
Nearest TSS
ENST00000440867/Upstream/13820; ENST00000472718/Downstream/16186;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/14971, chr3-CpG: 109/Downstream/186819
Nearest cancer related gene
SMARCC1(TSG, No orient, 0)
Upstream sequence
TAGGGACTGATTCAGGATAAAAGGGACAAATGGCAAGAACACTAAAGGCATACGAGGGATGAGTGCACATAAAGGAGTGAAAGGCAAACCAAGGAAAAAC
Downstream sequence
TATGGAAGGAGCAAGCCAAAAAAAATGAAGACTTTCCAGCTGATCAATAAAAATTTGTGAGTAACTTGGAATTGTGGATGAGATGTAAGTAAAGTGAAGG
Reference
Sharaf, R., et al.HIV-1 proviral landscapes distinguish posttreatment controllers from noncontrollers. J Clin Invest,2018,128(9): 4074-4085.
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