Basic Information
VIS ID
TVIS30006921
Fusion event
HIV-LINC01572 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
chr16
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
72523282/72489383 (Hg38)
End
72523282/72489383 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC01572
Nearest miRNA
hsa-mir-1225/Upstream/2458961; hsa-mir-11401/Downstream/4379553;
Nearest TSS
ENST00000527434/Upstream/60030; ENST00000624116/Downstream/138303;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/395941, chr16-CpG: 51/Downstream/175261
Upstream sequence
acagagtctataagttagtggactctttcacttcttgtttgttctggaaatgtcattattatgcccttattcttgaataataccttaggtggaaataTAT
Downstream sequence
ATCAACTGGGAAAAGAGAAACGATTCCAGGTATTTAAAATTAAAAGGTATCTTGCTACAGAAATTTAGGTGCTACAAACTGTAAgaaatattctcaatca
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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