Basic Information
VIS ID
TVIS30014743
Fusion event
HIV-PDHX 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
chr11
Cytoband
p13
Reference genome
GRCh37/hg19
Start
35010968/34989421 (Hg38)
End
35011093/34989421 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11E
Target gene
PDHX
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-mir-181d-5p ; hsa-mir-193b-3p ; hsa-mir-320a ; hsa-mir-181b-5p ; hsa-mir-15a-5p ; hsa-mir-513a-5p ; hsa-mir-190a-3p ; hsa-mir-410-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-128-3p
Nearest miRNA
hsa-mir-1343/Upstream/47501; hsa-let-7a-2/Downstream/1020677;
Nearest TSS
ENST00000527297/Upstream/4788; ENST00000526025/Downstream/148305;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/72588, chr11-CpG: 53/Downstream/149407
Upstream sequence
tgtgggtctttgaagtatcccctgcagataaggggggactactgTATGCAACTGGGAGAAAAAAAGGGTTAAGAAAGAAGAGACCTGAGTCAAACGGGAG
Downstream sequence
TAGTCTTTTTGAAAAGACTGTGGGATCATGGACAGGTTGAGCTCTGGATTCTCACTAAGAGACATActatccagtacacacttccctctgatcgtcactt
Target sequence
AGTACTCTGCCAAAGAAGCAGTGAAGATTCCCCGAGGAATGTGAGGTTGTGGTCTTAGCAAGTAGGCAGTGGATAAGAGAACCTGCAGCAAAGAAACCAAGGCTCTCTACCTGGTGAGGCAGGAG
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