Basic Information
VIS ID
TVIS30003492
Fusion event
HIV-SNRK-AS1 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
chr3
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
43390449/43348957 (Hg38)
End
43390449/43348957 (Hg38)
Orient
+
Location type
ncRNA_exonic
Target gene
SNRK-AS1
Nearest miRNA
hsa-mir-12127/Upstream/4210691; hsa-let-7g/Downstream/765255;
Nearest TSS
ENST00000440867/Upstream/1314; ENST00000486764/Downstream/3005;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/62243, chr3-CpG: 18/Downstream/14970
Upstream sequence
TTGTTGTTCTGCACTTAACCTAGAGAGAGAAAAAATGCTTTTCTTTGTGAAAAATCTGAATTCCTGTCCTGACCTTCTGTGATGTGGAAACCCTAGGCTC
Downstream sequence
TGAGACACACTCTCTGGTGTCTGAGACAGAACCAAAGCAATAACGTTGTGATGCCCACAGGCCTGGAGCCAGCTAGCGACCTTGTGCCGCCCAGCTGTCC
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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