Basic Information
VIS ID
TVIS30003319
Fusion event
HIV-STX16-NPEPL1 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
chr20
Cytoband
q13.32
Reference genome
GRCh37/hg19
Start
57233576/58658520 (Hg38)
End
57233576/58658520 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
STX16-NPEPL1
Nearest miRNA
hsa-mir-103a-2/Upstream/1336929; hsa-mir-1-1/Downstream/159095;
Nearest TSS
ENST00000382410/Upstream/6423; ENST00000438253/Downstream/9000;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/7254, chr20-CpG: 102/Downstream/33951
Upstream sequence
GTTCTTTTTTGCTCTCATAGAAAATTGTGGAAGGAATGAAGAGGATTTGCAGCTTTTCATAATGTCATCTAATTGAATTTTTACGTGGAGTAAAGTTTGA
Downstream sequence
TTACATTTTTATTGCTATCATTGTTTAATAATATTTTGACCCTGATAGAGCAGCTTCATTTGCACTATTTTTAAATAAGAAAGTTATGTTTTATTTTCTA
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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