Basic Information
VIS ID
TVIS30010172
Fusion event
HIV-NUCB2 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
chr11
Cytoband
p15.1
Reference genome
GRCh37/hg19
Start
17323300/17301753 (Hg38)
End
17323300/17301753 (Hg38)
Orient
-
Location type
Exonic
Fragile sites / regions
FRA11C ; FRA11I
Target gene
NUCB2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-432-3p ; hsa-mir-539-5p ; hsa-mir-432-5p ; hsa-mir-376a-5p ; hsa-mir-1294 ; hsa-mir-202-3p ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-3605-5p ; hsa-mir-3679-5p ; hsa-mir-1185-5p ; hsa-mir-4693-3p ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-3200-5p ; hsa-mir-5586-3p ; hsa-mir-548c-3p
Nearest miRNA
hsa-mir-210/Upstream/1332132; hsa-let-7a-2/Downstream/1086034;
Nearest TSS
ENST00000527297/Upstream/6431; ENST00000527735/Downstream/9167;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/24606, chr11-CpG: 65/Downstream/49719
Upstream sequence
CTAATGTATTGTAACCCTGTTTTTAAGCTGTTGCATTTGTCTAAAAATGGAATGTAATAGATAAAACTAACTTACTAATTTTGTTAACAGAGTGGGAGGC
Downstream sequence
TAAGCAAAGAACTGGATTTAGTAAGTCACCATGTGAGGACAAAACTTGATGAACTGAAAAGGCAAGAAGTAGGAAGGTTAAGAATGTTAATTAAAGCTAA
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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