Basic Information
VIS ID
TVIS30008254
Fusion event
HIV-chr3 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
chr3
Cytoband
p25.3
Reference genome
GRCh37/hg19
Start
9294895/9253211 (Hg38)
End
9294895/9253211 (Hg38)
Orient
+
Location type
Intronic
Target gene
SRGAP3 ; SRGAP3-AS4
Nearest miRNA
hsa-mir-4790/Upstream/4002956; hsa-let-7g/Downstream/1027140;
Nearest TSS
ENST00000440867/Upstream/3526; ENST00000449023/Downstream/3548;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/116706, chr3-CpG: 27/Downstream/109788
Nearby gene
SRGAP3(No orient, 3526)
Nearest cancer related gene
SRGAP3(TSG, No orient, 0)
Upstream sequence
ttgttttgaagttgggtaaacggaggccaagagcagtgaagcaagttacccaagatcacaaagctagctagtaacttaattgcactgaagcccaggtatg
Downstream sequence
gctcatagcggagcccaaggacttaaacagtgcacgattctatcccGGAGGAATCAGCATAGGAATAATTGCTATCAAGTAATAACCCATTTTTTCATTC
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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