Basic Information
VIS ID
TVIS30010308
Fusion event
HIV-ARHGEF7 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
chr13
Cytoband
q34
Reference genome
GRCh37/hg19
Start
111871447/111219100 (Hg38)
End
111871447/111219100 (Hg38)
Orient
+
Location type
Intronic
Target gene
ARHGEF7
miRNAs that regulate target gene
hsa-mir-24-3p ; hsa-mir-18a-3p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-580-5p ; hsa-mir-3919 ; hsa-mir-5680 ; hsa-mir-541-5p ; hsa-mir-106b-5p ; hsa-mir-4642 ; hsa-mir-1256 ; hsa-mir-509-3p ; hsa-mir-3185 ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p
Nearest miRNA
hsa-mir-1267/Upstream/878071; hsa-mir-4502/Downstream/2043820;
Nearest TSS
ENST00000623511/Upstream/13811; ENST00000483189/Downstream/22045;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/64916, chr13-CpG: 77/Downstream/35294
Upstream sequence
TCTTATTGTATGTATATGtatacatatatgtaaagcagttcgccatttttaccagttctaagtgtactgttcagtagcactaggtacattcacagtttta
Downstream sequence
taaccatcaccaccgtttatctccagaactgtttcttctcaaactgaattctgttcccattaaacagtccccattcccctccccagcccctgccctctac
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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