Basic Information
VIS ID
TVIS30013695
Fusion event
HIV-SMARCA2 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
chr9
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
2156774/2156774 (Hg38)
End
2156774/2156774 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMARCA2
miRNAs that regulate target gene
hsa-mir-199a-3p ; hsa-mir-199a-5p ; hsa-mir-186-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-19b-3p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-1302-9/Upstream/2126493; hsa-let-7a-1/Downstream/2693523;
Nearest TSS
ENST00000422679/Upstream/32924; ENST00000637856/Downstream/906;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/108973, chr9-CpG: 24/Downstream/84563
Nearest cancer related gene
SMARCA2(TSG, No orient, 0)
Upstream sequence
cctgctttggcctcccaaagtgctgggattacaggcatgagccaccgtacctggcccattgtagccatttcaagtgtacatttcagtaacatgaagtaca
Downstream sequence
tttacattgttgtgcaaccatcaccaacatcccatcttcagaacttttccgttatctcaaactgaaattctgacctcattaagcactaactccccggccg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate