Basic Information
VIS ID
TVIS30008080
Fusion event
HIV-SH3BGR 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
chr21
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
40818999/39447073 (Hg38)
End
40818999/39447073 (Hg38)
Orient
-
Location type
Intronic
Target gene
SH3BGR
Nearest miRNA
hsa-let-7c/Upstream/4; hsa-mir-3197/Downstream/765279;
Nearest TSS
ENST00000624081/Upstream/1131; ENST00000423596/Downstream/4757;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/1026, chr21-CpG: 49/Downstream/165609
Upstream sequence
GGGTTAGGACAAGCTTTCTCTCCATATCACCATTTCTTCCTCTAGAAATGCATGACCCACCCTGAGTTTTGGTGGGCCATGCATTTCTAGAACTCCTTAG
Downstream sequence
GTAGGGAATTATCCGTATAAGATGGGTGCCGGTTGTTTTTGCTGGTGGTGGTGGGCGGGGCAACATCTCCAGGTAGGCAAACATTAGACAAATGTCACTC
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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