Basic Information
VIS ID
TVIS30006887
Fusion event
HIV-CBFB 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
q22.1
Reference genome
GRCh37/hg19
Start
67134280/67100377 (Hg38)
End
67134280/67100377 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA16B
Target gene
CBFB
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-155-5p ; hsa-mir-125b-5p ; hsa-let-7b-5p ; hsa-mir-30a-5p ; hsa-mir-130b-3p ; hsa-mir-615-3p ; hsa-mir-92a-3p ; hsa-mir-5692a ; hsa-mir-100-3p ; hsa-mir-153-3p ; hsa-mir-570-5p ; hsa-mir-624-3p ; hsa-mir-4327 ; hsa-mir-548ag ; hsa-mir-548ai ; hsa-mir-548ba ; hsa-mir-448 ; hsa-mir-365b-3p ; hsa-mir-365a-3p ; hsa-mir-5582-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p
Nearest miRNA
hsa-mir-1225/Upstream/9328025; hsa-mir-11401/Downstream/101944;
Nearest TSS
ENST00000527434/Upstream/6979; ENST00000565900/Downstream/9581;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/70268, chr16-CpG: 79/Downstream/9002
Nearest cancer related gene
CBFB(OG, No orient, 0)
Upstream sequence
AAAGCATATAACTGTACTTGACTGATGAGGGAGGTGTTACTTTCATTGTATATAGGTCTTATTTCATAAACAGATATCCTGTATCAAATAAAAGTATTTG
Downstream sequence
TTATATATTTGAAGTTATGCATGGAAAGGAGTGTGTTTAAATTGTTACAAACAATAATGCGTCATTAAAGGCCATGCTGATCTTGCATAACTATAAGTAC
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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