Basic Information
VIS ID
TVIS30010988
Fusion event
HIV-SNX13 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
chr7
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
17908280/17868657 (Hg38)
End
17908280/17868657 (Hg38)
Orient
-
Location type
Intronic
Target gene
SNX13
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-136-5p ; hsa-mir-1226-3p ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-124-3p ; hsa-mir-506-3p
Nearest miRNA
hsa-mir-339/Upstream/10801612; hsa-mir-10399/Downstream/258563;
Nearest TSS
ENST00000635602/Upstream/46960; ENST00000455069/Downstream/31449;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/569180, chr7-CpG: 82/Downstream/71494
Upstream sequence
TTCTAACACAATGCTGTTACTTAAGAAAAGTATGATATACATGTAACTAGGACTTGATAAGCAACACAGTCTTATAAAAAGatgaactactatgcctcag
Downstream sequence
tttagataaatgagatacagttacctgtatcaacttggacacatctccacagtaacaactgtggagtgaaataaagcaagatgatacctctagtatgtta
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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