Basic Information
VIS ID
TVIS30016755
Fusion event
HIV-CASK 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
chrX
Cytoband
p11.4
Reference genome
GRCh37/hg19
Start
41663816/41804563 (Hg38)
End
41663861/41804563 (Hg38)
Orient
+
Location type
Intronic
Target gene
CASK
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-203a-3p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-3908 ; hsa-mir-4724-5p ; hsa-mir-4519 ; hsa-mir-4274 ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-646 ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-1587/Upstream/1966950; hsa-let-7f-2/Downstream/3941594;
Nearest TSS
ENST00000429181/Upstream/58970; ENST00000411879/Downstream/48630;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/329690, chrX-CpG: 143/Downstream/118290
Upstream sequence
TCTGCATATTTATTTACATGCCCATACATAGAGACACACACATTAAAATAAGAGAGCAAAAAAACCTTAAAGCATGAAAGACAGAAAACAGAGAGAGCAC
Downstream sequence
CTACTAAGGTGACACCAGGGACATGCTTGCTTTGTAAGTAGTTCAACACAGGTCCTGGCTCTCTTCTTTTTTGGGAAGGGTTATTTTACATGCTACAAAT
Target sequence
AACTGTGAACTACTGTCCTTAGAAATCCCATCTTTCTCACTAAAA
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