Basic Information
VIS ID
TVIS30012273
Fusion event
HIV-LOC440434 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
q12
Reference genome
GRCh37/hg19
Start
36366270/38210210 (Hg38)
End
36366270/38210210 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LOC440434
Nearest miRNA
hsa-mir-1180/Upstream/595171; hsa-mir-10226/Downstream/492052;
Nearest TSS
ENST00000595228/Upstream/17669; ENST00000619548/Downstream/86813;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/27534, chr17-CpG: 63/Downstream/46548
Upstream sequence
TACGTATATCAAGATTTAAAGCATGGGAAGTCTAACAAATCAAAGATAGGGCATGACTATAAAGTAATTAACCAATCATACCAAACTTTTATATCCTAAT
Downstream sequence
GTTTCAAATTGTCATTTTGGAACGCTAAAGAGCAATGACATTTGACATTGTTCAAAATGTTGTGACtttctctttctctcttttttttttttgagacaga
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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