Basic Information
VIS ID
TVIS30014513
Fusion event
HIV-RLF 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
40696336/40230664 (Hg38)
End
40696206/40230664 (Hg38)
Orient
-
Location type
Intronic
Target gene
RLF
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-181a-5p ; hsa-mir-96-5p ; hsa-mir-877-3p ; hsa-mir-182-5p ; hsa-mir-17-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p
Nearest miRNA
hsa-mir-12136/Upstream/2141335; hsa-mir-101-1/Downstream/523691;
Nearest TSS
ENST00000473358/Upstream/69291; ENST00000468258/Downstream/15283;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/68724, chr1-CpG: 22/Downstream/27050
Upstream sequence
tgggattacaggcatccaccaccacactcagctaagttttatatttgtagtagagatgaggtttcaccatgttggccagcctggtttcgaactcctgacc
Downstream sequence
tcaagtgatctgccccccttcacctcccaaaatgctaggattacaggcatgagccacccgccatgcccggccTCTTTTTAGTTTTGCTATTAGAAGTGAT
Target sequence
gattctcctgttctcagcctcccaagtagctgggattacaggcatccaccaccacactcagctaagttttatatttgtagtagagatgaggtttcaccatgttggccagcctggtttcgaactcctgacc
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