Basic Information
VIS ID
TVIS30012599
Fusion event
HIV-SNRPA 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
chr19
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
41265621/40759716 (Hg38)
End
41265621/40759716 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
SNRPA
miRNAs that regulate target gene
hsa-mir-1307-3p ; hsa-mir-320c ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-10395/Upstream/389809; hsa-let-7e/Downstream/1109911;
Nearest TSS
ENST00000633603/Upstream/2680; ENST00000596860/Downstream/3825;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/8387, chr19-CpG: 46/Downstream/18259
Upstream sequence
CAGGTCCCGGAGACCAACCCTCCCACTGCCAGACCTTCCTCAGCCACATGGACTGGCTTTGGGACAGGGTGGGGAGAGTTCTCCCCTTGGGGCTTCAGAC
Downstream sequence
CCCTCCTTTCCATTTCTTTATAGAGATGTGTTTCTCTCTCTCTTTTGGGGGGTATTGAGCACCTAGATGATGCTATCTCCTTTCGAAACTCTTGTTCCCT
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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