Basic Information
VIS ID
TVIS30002622
Fusion event
HIV-LOC339166 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
chr17
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
5697459/5794139 (Hg38)
End
5697459/5794139 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LOC339166
Nearest miRNA
hsa-mir-1253/Upstream/823989; hsa-mir-10226/Downstream/861301;
Nearest TSS
ENST00000595228/Upstream/21213; ENST00000572764/Downstream/263668;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/292857, chr17-CpG: 112/Downstream/275856
Upstream sequence
attgggttttgtcattagggggcactagagggatgctggaggcaggagaagggagaagagctgtggagcttcctgttttgcttgttgccCCTGTAAGTGG
Downstream sequence
TCTGGCCTGAGATCCCAGTCTCTTGGGACCTTACAGTTTCTATGATGTGGTCACCGTTTGGTCCAGCTGCCCAGACTTGCTAAACATCCCTTGGGCTGGT
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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