Basic Information
VIS ID
TVIS30003305
Fusion event
HIV-PREX1 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
q13.13
Reference genome
GRCh37/hg19
Start
47392847/48776310 (Hg38)
End
47392847/48776310 (Hg38)
Orient
+
Location type
Intronic
Target gene
PREX1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/1609252; hsa-mir-1-1/Downstream/1087549;
Nearest TSS
ENST00000382410/Upstream/83626; ENST00000493140/Downstream/51573;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/111205, chr20-CpG: 206/Downstream/50887
Upstream sequence
atctaatgaggaatgagGCTAAAAGAGTGAAGCTAGAGTCCGGGTCATCCTGGACCACAACCTCAGGGCTGCTCTGGCCCCTACACCCCAACAGCCTCCC
Downstream sequence
AGGTTCTAAAGTCCAATGTCCCCCATGGACCCCGCCCCCCTCAGACAGCCGAGACAGGCGCTCTGAGAGCCAAGATGTCCAAGGAGGTGGCACCTGGCAA
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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