Basic Information
VIS ID
TVIS30006964
Fusion event
HIV-SMG6 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
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2122774/2219480 (Hg38)
End
2122774/2219480 (Hg38)
Orient
-
Location type
Intronic
Target gene
SMG6
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-331-3p ; hsa-mir-185-5p ; hsa-mir-93-5p
Nearest miRNA
hsa-mir-132/Upstream/169100; hsa-mir-10226/Downstream/473381;
Nearest TSS
ENST00000595228/Upstream/5131; ENST00000414776/Downstream/9984;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/160146, chr17-CpG: 100/Downstream/83743
Upstream sequence
cctcaaaaataaaaaacaaaataagataaataaaatgcttaatgtctacaggaaggtggttgctggacattctcaaacactgctaagagtgtaagctgat
Downstream sequence
acaccttcttcaaaaagtaacctaggtcgggtgcagtggctcatgcctgtaatcccagcgcattttgagaggccaaggtgagaggactgcttgagcccag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate