Basic Information
VIS ID
TVIS30014986
Fusion event
HIV-SH2B3 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
q24.12
Reference genome
GRCh37/hg19
Start
111861124/111423320 (Hg38)
End
111861163/111423320 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
SH2B3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-30b-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-452-3p ; hsa-mir-3159 ; hsa-mir-6165 ; hsa-mir-576-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-563 ; hsa-mir-380-5p ; hsa-mir-4793-3p ; hsa-mir-6849-3p ; hsa-mir-766-3p ; hsa-mir-1273g-3p ; hsa-mir-3940-3p ; hsa-mir-508-5p ; hsa-mir-500a-3p ; hsa-mir-767-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-367-3p ; hsa-mir-363-3p ; hsa-mir-32-5p ; hsa-mir-25-3p ; hsa-mir-5584-3p ; hsa-mir-129-5p ; hsa-mir-6885-3p ; hsa-mir-6875-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-1273e ; hsa-mir-6805-3p ; hsa-mir-5691 ; hsa-mir-6868-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6826-3p ; hsa-mir-1289 ; hsa-mir-4327 ; hsa-mir-4778-3p ; hsa-mir-1236-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-6832-3p ; hsa-mir-4433b-3p
Nearest miRNA
hsa-let-7i/Upstream/119111; hsa-mir-1178/Downstream/376514;
Nearest TSS
ENST00000382841/Upstream/4980; ENST00000538307/Downstream/11542;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/4374, chr12-CpG: 204/Downstream/174488
Nearest cancer related gene
SH2B3(TSG, No orient, 0)
Upstream sequence
CAATCAGAAGCTGTTGGGAAAACGCAAGCACAGATAAAAAACGGTTTTCTCATCATTTGTTAAAAATCTCAAGGCTGTGACACCATGAAAGACAAATAAC
Downstream sequence
tttttatttttttattttttatttttttgagacagagtcttgctctgttgcccaggctggagtgcagtggcacggtgtcagctcactgccagctccgcct
Target sequence
GGCCCCAATACATGATCTTATCTGTGTGACACTGTAGGG
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate