Basic Information
VIS ID
TVIS30014957
Fusion event
HIV-R3HDM2 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
q13.3
Reference genome
GRCh37/hg19
Start
57731635/57337852 (Hg38)
End
57731761/57337852 (Hg38)
Orient
+
Location type
Intronic
Target gene
R3HDM2
miRNAs that regulate target gene
hsa-mir-671-5p ; hsa-mir-125b-5p ; hsa-let-7c-5p ; hsa-mir-6895-5p ; hsa-mir-1972 ; hsa-mir-6079 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6828-5p ; hsa-mir-4755-3p ; hsa-mir-4786-3p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-5693 ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-5582-5p ; hsa-mir-1299 ; hsa-mir-3202 ; hsa-mir-4493 ; hsa-mir-4533 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-518c-5p ; hsa-mir-383-3p ; hsa-mir-514a-5p ; hsa-mir-4753-5p
Nearest miRNA
hsa-mir-1228/Upstream/143276; hsa-let-7i/Downstream/174836;
Nearest TSS
ENST00000382841/Upstream/27389; ENST00000547552/Downstream/3630;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/93962, chr12-CpG: 99/Downstream/137440
Nearby gene
R3HDM2(No orient, 27389)
Upstream sequence
GTATCTTCTCAGAGATGTTACCTCCCAATATGAAAGCCCCAGACTCGAATCATAGGAAGCTATCTTTCTCAACTAATAATAGCAGCAGCTATCATTTACT
Downstream sequence
GAAAAGTACTGCAGGTTTCTTTATACTTAGAAAAAACACGCATggccgggtgcagtggctcacgcctgtaatctcagctctttgtgaggctgagatgggc
Target sequence
GTATTCCAAACACTATGTCCAGGTTATACAGGTCATCACAATTATTTGAATTTAACAAATGCTAAAAATTTTCATCTGTCAGATATGAACACTAGaaatttttatattttttaatttttatGATTA
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