Basic Information
VIS ID
TVIS30005882
Fusion event
HIV-KMT5B integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
67952589/68185122 (Hg38)
End
67952589/68185122 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
KMT5B
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-32-5p ; hsa-mir-27a-3p ; hsa-mir-19b-3p ; hsa-mir-21-3p ; hsa-mir-128-3p ; hsa-mir-5585-3p ; hsa-mir-502-5p ; hsa-mir-889-3p ; hsa-mir-4796-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-526b-3p ; hsa-mir-17-5p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-106a-5p ; hsa-mir-92b-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10392/Upstream/140165; hsa-let-7a-2/Downstream/898054;
Nearest TSS
ENST00000527297/Upstream/4957; ENST00000528890/Downstream/4954;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/56485, chr11-CpG: 280/Downstream/27422
Upstream sequence
AATCCCAAAGATTAAACATGATGACAAAATTCCCCATCTATACAGAGACAACGTGTAAGAGAAAAGTCTATAATAAAATCATGAAAAAAAGGGATGTACC
Downstream sequence
CTACTTTAGGTTGGAAATAATCATACACTTTCAAGGTGTTACAGGATGCTTGTCAGATTTTTCTTTTCGCTAAGATAATTGTCATCACCttttttttttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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