Basic Information
VIS ID
TVIS30005310
Fusion event
HIV-STXBP3 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
chr1
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
109295590/108752968 (Hg38)
End
109295590/108752968 (Hg38)
Orient
-
Location type
Intronic
Target gene
STXBP3
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-mir-378a-3p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p
Nearest miRNA
hsa-mir-101-1/Upstream/855664; hsa-mir-11399/Downstream/845925;
Nearest TSS
ENST00000473358/Upstream/6280; ENST00000486601/Downstream/6089;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/5768, chr1-CpG: 71/Downstream/123876
Upstream sequence
ACTTATGTACGATACTATATGCATGTATATTGAGAAAATCTCTAGCTCATGCAAGATAAAAGATGAGATCATTTTGCCTACTGTTCTGATATTTTGTGTT
Downstream sequence
ATAAAAGGCTTATAAAGTTTAATGGATAAAATTCTTTTTTTCATTCTTGGTAATAGGATGCTTACAGTATTTTTAAATTTGTGTTTGTTTTAAGATAATG
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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