Basic Information
VIS ID
TVIS30014604
Fusion event
HIV-RCSD1 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
q24.2
Reference genome
GRCh37/hg19
Start
167646367/167677130 (Hg38)
End
167646210/167677130 (Hg38)
Orient
-
Location type
Intronic
Target gene
RCSD1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-4684-5p ; hsa-mir-3663-5p ; hsa-mir-490-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1522332; hsa-mir-1182/Downstream/321530;
Nearest TSS
ENST00000473358/Upstream/46456; ENST00000487858/Downstream/44062;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/46528, chr1-CpG: 52/Downstream/37110
Upstream sequence
TCCTTAAAGCCTACAAGTGGTTAGGTAGGGGACATCTGGGACTTTTTTGGTTCTGTGTGAGATATCTGATTACATGTATTTGTTAATATATGCTTGTTTC
Downstream sequence
AATTCCTCTACCTTATCTATTTCTTGCAGTTCTTCTTTACCTCTCTGTATTCTCCTCACCCCTGAAAAAGGCTGTTCACTCCTTGAGGGCCGTCACGGTT
Target sequence
CTCCTGGGATTCTCCCTGGGAGCCAGTTGCAGAGACCAAGGACCTGCCATTTTCAGATCCTTAAAGCCTACAAGTGGTTAGGTAGGGGACATCTGGGACTTTTTTGGTTCTGTGTGAGATATCTGATTACATGTATTTGTTAATATATGCTTGTTTC
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