Basic Information
VIS ID
TVIS30014746
Fusion event
HIV-CKAP5 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
chr11
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
46851467/46829916 (Hg38)
End
46851711/46829916 (Hg38)
Orient
+
Location type
Intronic
Target gene
CKAP5
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-130b-3p ; hsa-mir-34a-5p ; hsa-mir-103a-3p ; hsa-mir-21-5p ; hsa-mir-18a-5p ; hsa-mir-16-5p ; hsa-mir-484 ; hsa-mir-186-5p ; hsa-mir-15b-5p
Nearest miRNA
hsa-mir-129-2/Upstream/76724; hsa-let-7a-2/Downstream/349695;
Nearest TSS
ENST00000527297/Upstream/3063; ENST00000531719/Downstream/16313;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/124429, chr11-CpG: 93/Downstream/15727
Upstream sequence
GAAGTCTAATTCCTTTTTtgtatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtATCTCACATACACATTTACATATGCATTTGTgt
Downstream sequence
gccgggcacggtggctcacgcctgcaatcccagaactttgggagtccaaggcaggcagatcacaaggtcaggaggtcgaaaccatcctggctaacacggt
Target sequence
aggctgataatgacccccaaagaaatcacgttgtaatccctgggacttgtaaatgttactttatttggaaaaagggtctttgcagatgtgattaaattaaggatcttgagatggggggattaccctggattgtttgggtgggtaaaggcaatcacatatatcattatgggcaagacggagggagatttgacccaatggagaaagtgatatgaagagggatcagagaaagattagaatagagtag
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