Basic Information
VIS ID
TVIS30014810
Fusion event
HIV-FCHSD2 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
q13.4
Reference genome
GRCh37/hg19
Start
72760000/73048955 (Hg38)
End
72759951/73048955 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
FCHSD2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-7159-3p ; hsa-mir-4668-5p ; hsa-mir-210-3p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-4272 ; hsa-mir-3613-3p ; hsa-mir-6074 ; hsa-mir-3622a-5p ; hsa-mir-548an ; hsa-mir-4482-3p ; hsa-mir-4474-5p ; hsa-mir-4662a-5p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-449b-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-10392/Upstream/265363; hsa-let-7a-2/Downstream/1350282;
Nearest TSS
ENST00000527297/Upstream/59943; ENST00000541254/Downstream/91106;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/226226, chr11-CpG: 192/Downstream/92176
Upstream sequence
AAATTCCCAGAACAATTTCACTTGGATTCAATAACGACCACACAAACATAGCAAGATGTTGATCGAGTAACTCATtgctatcaaattctcacatgacaaa
Downstream sequence
gagctatgaagaacagtaaatatttaaataacagaatcaagatgctaaaacttctcaacatactgacacagtggaataaacctaatacaatagaatctca
Target sequence
CAAGATGTTGATCGAGTAACTCATtgctatcaaattctcacatgacaaa
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