Basic Information
VIS ID
TVIS30016168
Fusion event
HIV-FRMD4B 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
chr3
Cytoband
p14.1
Reference genome
GRCh37/hg19
Start
69321383/69272232 (Hg38)
End
69321647/69272232 (Hg38)
Orient
+
Location type
Intronic
Target gene
FRMD4B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-9-5p ; hsa-mir-98-5p ; hsa-mir-3672 ; hsa-mir-4524a-3p ; hsa-mir-526b-5p ; hsa-mir-578 ; hsa-mir-6864-3p
Nearest miRNA
hsa-let-7g/Upstream/223197; hsa-mir-12124/Downstream/2269738;
Nearest TSS
ENST00000440867/Upstream/21984; ENST00000460597/Downstream/20829;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/186904, chr3-CpG: 62/Downstream/113543
Upstream sequence
CAAGTCttttatttatttatttattttgagacagaatttcgctctgttgcccaggctggagtgcagtggtatgatcttggctaactgcaacctctaccac
Downstream sequence
CATTCGATTTCTGTTACTAATCCTTTAAATTATTTCTAAATCTTGAAATGAGTTGAGGATTAAAacacatacactcgtatgtgtgtacacacacacacac
Target sequence
ctgggttcaagtgattctcctgtctctcagcctcctgagtattggaactacaggtgtgcaccaccatgctcagttaatttattgtttttagtagagatggttaaattttgtatttctaggttttagcatgttggccaggctggtcttgaactcctggcctcaggtgatccgcctgcctcggcctcccaaagtgctgggattacaggcataagccactgcgcccagccCATTCACAAGTCTTAATACAGAATTTAC
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