Basic Information
VIS ID
TVIS30002873
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
2576658/2576659 (Hg38)
End
2576658/2576659 (Hg38)
Orient
+
Location type
Intronic
Target gene
NDC80
miRNAs that regulate target gene
hsa-mir-193b-3p
Nearest miRNA
hsa-mir-8078/Upstream/2464320; hsa-mir-1-2/Downstream/1308694;
Nearest TSS
ENST00000575820/Upstream/5094; ENST00000574567/Downstream/1190;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/5078, chr18-CpG: 199/Downstream/78260
Upstream sequence
gactgctcagtgatccttagacaacactttgagaacAACCATCTATCTGGagtaggtcagtggttgtctaggctgcaggttggagaaggattaactgtta
Downstream sequence
aggggcataaggagactttgggggatgatagaaatgctcatattttgattggcataagtgacacaaatgcgtttattgtcaaacttcatcaaactgtatg
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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