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TVIS30014473
Basic Information
VIS ID
TVIS30014473
Fusion event
HIV-USP48 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
p36.12
Reference genome
GRCh37/hg19
Start
22072665/21746172 (Hg38)
End
22072872/21746172 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
USP48
miRNAs that regulate target gene
hsa-mir-124-3p
;
hsa-mir-148b-3p
;
hsa-mir-580-3p
;
hsa-mir-7153-5p
;
hsa-mir-146b-5p
;
hsa-mir-146a-5p
;
hsa-mir-589-5p
;
hsa-mir-4539
;
hsa-mir-545-5p
;
hsa-mir-8063
;
hsa-mir-374b-3p
;
hsa-let-7i-3p
;
hsa-mir-4524b-5p
;
hsa-mir-4524a-5p
;
hsa-mir-1468-3p
;
hsa-mir-5590-3p
;
hsa-mir-545-3p
;
hsa-mir-142-5p
;
hsa-mir-646
;
hsa-mir-548p
;
hsa-mir-561-3p
;
hsa-mir-548at-5p
;
hsa-mir-503-5p
;
hsa-mir-6838-5p
;
hsa-mir-497-5p
;
hsa-mir-424-5p
;
hsa-mir-195-5p
;
hsa-mir-16-5p
;
hsa-mir-15b-5p
;
hsa-mir-15a-5p
;
hsa-mir-1305
;
hsa-mir-943
;
hsa-mir-3118
;
hsa-mir-134-5p
;
hsa-mir-1290
;
hsa-mir-876-5p
;
hsa-mir-3167
;
hsa-mir-1246
;
hsa-mir-892a
;
hsa-mir-4796-3p
;
hsa-mir-3609
;
hsa-mir-548ah-5p
;
hsa-mir-20a-5p
;
hsa-mir-20b-5p
;
hsa-mir-519d-3p
;
hsa-mir-17-5p
;
hsa-mir-93-5p
;
hsa-mir-526b-3p
;
hsa-mir-106a-5p
;
hsa-mir-106b-5p
Nearest miRNA
hsa-mir-12136/Upstream/757740; hsa-mir-101-1/Downstream/520067;
Nearest TSS
ENST00000473358/Upstream/13336;
ENST00000484271/Downstream/2019;
Nearest CpG islands
None/Target,
chr1-CpG: 111/Upstream/76256
,
chr1-CpG: 111/Downstream/36464
Upstream sequence
CAGCTTGCTTCCATTGTAAGCTGCCTCCAGAAATGTCTCTTAAAGGTTTTTACAGCTTGCTTCCATTGTAAGCTGCCTCTAGAAATTTTTTATTTTTTTG
Downstream sequence
gctgaggttgcagtgagctgagatcgtgtcactgcactccagcctaggcaacagagcaagactccgtctcaaaaaTACATACATACATACATAATATTTT
Target sequence
GAAAGAGATAGAGTTTATAAAATAATTTCTACATTAAAAATTTCAggttgggggcagtggctcacgcctgtaatcccagcacttagggaggtcaaggcaggtgtcccacttgaggccaggagtttgagaccagcttggccaacacggcaaaaccctaaagtgcaaaaattagctgggctcccttgtagcctcccagctacaagggag
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.
Sample Information
×
Sample name
PT3
Sample type
PBMC
Age
52
Gender
Male
CpG Island Information
×
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