Basic Information
VIS ID
TVIS30015077
Fusion event
HIV-SYNE2 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
chr14
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
64399969/63933251 (Hg38)
End
64399916/63933251 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA14B
Target gene
SYNE2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-193b-3p ; hsa-mir-148b-3p ; hsa-mir-9-5p ; hsa-mir-1-3p ; hsa-mir-34a-5p ; hsa-mir-26b-5p ; hsa-mir-21-5p ; hsa-mir-484 ; hsa-let-7b-5p ; hsa-mir-543 ; hsa-mir-376a-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-208a/Upstream/3284540; hsa-mir-1185-1/Downstream/161773;
Nearest TSS
ENST00000550708/Upstream/24153; ENST00000557005/Downstream/69773;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/79443, chr14-CpG: 45/Downstream/360762
Upstream sequence
TCATAGAGTAGAGAACACTCTTGGAGATGCCACATTTTAATCCTGCATCGCTCTGCATTTAAGTGAAACTGAAAGCTAGTGATTCTTAGCCTCAGGTAAC
Downstream sequence
TGCTTCTGAACTCTTACTACCAGGGAGGACTCCTGGAGTCAGCATTTTAAACCAACTTTTGGGAAATGACCTTGCTGAGACTTAGTAGCCATGGTAGTTT
Target sequence
TCGCTCTGCATTTAAGTGAAACTGAAAGCTAGTGATTCTTAGCCTCAGGTAAC
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