Basic Information
VIS ID
TVIS30010228
Fusion event
HIV-ARHGEF12 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
q23.3
Reference genome
GRCh37/hg19
Start
120242851/120372142 (Hg38)
End
120242851/120372142 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11B
Target gene
ARHGEF12
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-1225-3p ; hsa-mir-30c-5p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-1250-3p ; hsa-mir-660-5p ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-10392/Upstream/1059130; hsa-let-7a-2/Downstream/1727615;
Nearest TSS
ENST00000527297/Upstream/35064; ENST00000530388/Downstream/13152;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/35202, chr11-CpG: 126/Downstream/139026
Nearest cancer related gene
ARHGEF12(TSG, No orient, 0)
Upstream sequence
AGGCACTGAGCTGGTTTATAACCTAGAGCAGTGATGCTTTCAACATTTTTGTGTTAACACATATGAACTTTTGAATACTAAAATTTTTGGTAATATGTTG
Downstream sequence
AAACTTCCAAGGGAACATTAGATAAAGTAATAGTAACTATAAGGTAACCACTAGTACAGTAAAAATGCCTTCTAGTTACAAATGAATCCAAAGCAATCTC
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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