Basic Information
VIS ID
TVIS30010100
Fusion event
HIV-SMG5 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
q22
Reference genome
GRCh37/hg19
Start
156232542/156262751 (Hg38)
End
156232542/156262751 (Hg38)
Orient
-
Location type
Intronic
Target gene
SMG5
miRNAs that regulate target gene
hsa-mir-708-5p ; hsa-mir-130b-5p ; hsa-mir-106b-3p ; hsa-mir-193b-3p ; hsa-mir-331-3p
Nearest miRNA
hsa-mir-101-1/Upstream/311415; hsa-mir-1182/Downstream/157590;
Nearest TSS
ENST00000473358/Upstream/8989; ENST00000456810/Downstream/4837;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/16643, chr1-CpG: 35/Downstream/19697
Upstream sequence
AGCATCTCCATCTTTACCACACCTCCCTCAATGACTAATGACTGAGTAACTAACTGTCATCAGACATAAGCACACACCCAACGGTGCACCTGGCCCTGAC
Downstream sequence
CCAAACCGTCTCATCTGGGGACTGGGGCGACCCACAGGGAAGAAAGTCTTCCACAGCAGGGCAGGTATGCCCCTAGAAGAAAACATTGAATAAATGCCTC
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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