Basic Information
VIS ID
TVIS30004810
Fusion event
HIV-RPRD1B 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
chr20
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
36683350/38054948 (Hg38)
End
36683350/38054948 (Hg38)
Orient
-
Location type
Intronic
Target gene
RPRD1B
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-124-3p ; hsa-mir-103a-3p ; hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-33a-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-3944-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-504-3p ; hsa-mir-545-3p ; hsa-mir-6838-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/2600851; hsa-mir-1-1/Downstream/461615;
Nearest TSS
ENST00000382410/Upstream/5195; ENST00000622494/Downstream/10930;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/20855, chr20-CpG: 35/Downstream/110199
Upstream sequence
GCCACTCCTTCCACATGACCACTTTGATGCCACAGTGGCTAAGTGTCTGCATGGGtcatatagcacacattaattaggcagctactatgtacaaagtact
Downstream sequence
gttaggtgttTCTTATGTAAATTTTATCCTAATAGATTTTTCATATTAAAAATATAgcaatctttgctttgcatagtagtgcaggactataaccatgatt
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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