Basic Information
VIS ID
TVIS30011035
Fusion event
HIV-UBE3C 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
chr7
Cytoband
q36.3
Reference genome
GRCh37/hg19
Start
157054229/157261535 (Hg38)
End
157054229/157261535 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7I
Target gene
UBE3C
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-let-7g-5p ; hsa-mir-10a-5p ; hsa-mir-30c-5p ; hsa-mir-17-5p ; hsa-let-7a-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-30a-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-136-3p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-4668-5p ; hsa-mir-4297 ; hsa-mir-5581-5p ; hsa-mir-922 ; hsa-mir-3714 ; hsa-mir-532-5p ; hsa-mir-548an
Nearest miRNA
hsa-mir-10399/Upstream/5827896; hsa-mir-153-2/Downstream/312801;
Nearest TSS
ENST00000635602/Upstream/4848; ENST00000439402/Downstream/21151;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/121869, chr7-CpG: 106/Downstream/17573
Nearest cancer related gene
UBE3C(OG, No orient, 0)
Upstream sequence
ACGGTCTTACTGTTTTTTTTATTTTTCTCAATGTTCTAACATATGTGAAATTTAATTGATTTTTCCATGATAAGTGTTTTTGAAGTTGTTATATGTTAGA
Downstream sequence
CATCCAGTTTGGAAAAATCATCTTAATATTTAGGCTTTCCGGTTAGCTTAGTATGCCTGGATTTGCCAGGGCTGCAGAATTAATGTAGACTTAAAGGAAG
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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