Basic Information
VIS ID
TVIS30003549
Fusion event
HIV-STX19 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
q11.2
Reference genome
GRCh37/hg19
Start
93747271/94028427 (Hg38)
End
93747271/94028427 (Hg38)
Orient
+
Location type
UTR5
Target gene
STX19
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-let-7g/Upstream/6802150; hsa-mir-12124/Downstream/2331537;
Nearest TSS
ENST00000440867/Upstream/48139; ENST00000477077/Downstream/183;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/47838, chr3-CpG: 36/Downstream/34377
Upstream sequence
ACCTCATATTAAAAAGTACAGAAAAGAGTCATTATTTACCTTTCTGTTTTCTTCCTTTTGTTGGTTTTCCACCTGCGGTGTTGGAGTCCTGCCTTTGAGA
Downstream sequence
GAATATCTGAATATCATCTCATGTTTTGAACAAATTATCTAAATCTCTGTCTTATAGGGCACAGACTAATTTCTGTATAGTTTTCATGTTGTTAATTTGA
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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