Basic Information
VIS ID
TVIS30009615
Fusion event
HIV-SNTB1 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
chr8
Cytoband
q24.12
Reference genome
GRCh37/hg19
Start
121697458/120685218 (Hg38)
End
121697458/120685218 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8C ; FRA8E
Target gene
SNTB1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-24-3p ; hsa-mir-5011-5p ; hsa-mir-218-5p ; hsa-mir-510-3p ; hsa-mir-3606-5p ; hsa-mir-1825 ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-8062 ; hsa-mir-1277-5p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-199b-5p ; hsa-mir-199a-5p
Nearest miRNA
hsa-mir-12123/Upstream/1359953; hsa-mir-10400/Downstream/2530570;
Nearest TSS
ENST00000518652/Upstream/146523; ENST00000509350/Downstream/8690;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/239801, chr8-CpG: 121/Downstream/125957
Upstream sequence
gcctgcaactctcccaggcaggagttgcacactgatggctctactggtgggaggtcttgtccctgaggtggctctgcccttatggctctgctaggcactg
Downstream sequence
ccttagtgggggctctctgtgatgatgctggcctcacagccctagtggacattgccctagtgggggttctctttggtggtcccacctctgttctctttct
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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