Basic Information
VIS ID
TVIS30016147
Fusion event
HIV-TRAIP 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
49868385/49830952 (Hg38)
End
49868839/49830952 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRAIP
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-34a-5p ; hsa-mir-192-5p
Nearest miRNA
hsa-mir-12127/Upstream/24707; hsa-let-7g/Downstream/396484;
Nearest TSS
ENST00000440867/Upstream/1178; ENST00000435478/Downstream/9600;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/27194, chr3-CpG: 37/Downstream/25425
Upstream sequence
AAGGCTACATGACAACCAAGGCTCCAGGAAGGACGAGCTGAGTTAGGGACTCAGAActtcactacctccttcactacctccACAGGCCATGAAGGTGGTG
Downstream sequence
ACCGTACCCCAGAGCAGGTTCCACCTGCCCCACTGGAATTCCAGACAGCTTCTCATGCTTGCCCCTGTGGGTCACCCCCTTGGGTGGTAAGGCCTTGGGC
Target sequence
GAAATGTCTCTGAAAGGCCTGGCAGCCTGAAGACCCCAGGTGTCCACCTTCAACCTTTACAGCGGAAGAAGGGCAATGGGAGGAAGCCAGAGTACACAGCAGACACTGACAGGATCCCTGAGGACTACAGCCCACGGGTCCTAGGTTTGTTTCTCATTGCTACCAGGCCTCGCCCTCTACAACAGGGGTGCCCATGCCCCCTGAGGTTTGGGAGGTAGGACAGCCCAGCTGGCTTGCCCTCTTGCTCCCTTCCAC
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