Basic Information
VIS ID
TVIS30012448
Fusion event
HIV-NDC80 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
chr18
Cytoband
p11.32
Reference genome
GRCh37/hg19
Start
2589553/2589554 (Hg38)
End
2589553/2589554 (Hg38)
Orient
+
Location type
Intronic
Target gene
NDC80
miRNAs that regulate target gene
hsa-mir-193b-3p
Nearest miRNA
hsa-mir-8078/Upstream/2477215; hsa-mir-1-2/Downstream/1295799;
Nearest TSS
ENST00000575820/Upstream/11431; ENST00000574096/Downstream/21227;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/17973, chr18-CpG: 199/Downstream/65365
Upstream sequence
AATGAAAACATGTTTGGTATCTGTGGAGCCTTGTTTTCCCTTGCGGTCTATCAGTCTTAGACTAATGGTGCTCTGGATATGATGAAAGATTCTTACCTAC
Downstream sequence
TTACATAAGATCAAAAGTACTTTTGAACAAAGGCCCTGTGTTATATACCTCTAGGGAGCATTAGTCACAAGAAGCCCTGAGTTTTGGAGGTAGTGCAAAA
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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