Basic Information
VIS ID
TVIS30016389
Fusion event
HIV-LINC00243 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
30787866/30820089 (Hg38)
End
30787754/30820089 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
LINC00243
Nearest miRNA
hsa-mir-3143/Upstream/235672; hsa-mir-10398/Downstream/70794;
Nearest TSS
ENST00000381078/Upstream/38131; ENST00000506573/Downstream/10570;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/75426, chr6-CpG: 41/Downstream/63993
Nearby gene
DDR1(No orient, 63994)
Upstream sequence
acaggccggcaaagtgtgggtagagaggtcaaggagagagaggagaagttactgtagaaatcgataacttcaacaaatgagagagaggtcagctgtaagg
Downstream sequence
taagaaccaagaagggcccactggatttggcgtggagcaaagggatggagtgagtggagtaaaagcgaagatggaaggtggatttcagtggtgccagagg
Target sequence
caggacccctgaacaggccggcaaagtgtgggtagagaggtcaaggagagagaggagaagttactgtagaaatcgataacttcaacaaatgagagagaggtcagctgtaagg
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