Basic Information
VIS ID
TVIS30010003
Fusion event
HIV-ARHGEF6 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
chrX
Cytoband
q26.3
Reference genome
GRCh37/hg19
Start
135802288/136720129 (Hg38)
End
135802288/136720129 (Hg38)
Orient
-
Location type
Intronic
Target gene
ARHGEF6
miRNAs that regulate target gene
hsa-mir-30c-5p ; hsa-mir-877-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-4306 ; hsa-mir-4644 ; hsa-mir-185-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-1253 ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-5197-3p ; hsa-mir-888-5p ; hsa-mir-371a-5p
Nearest miRNA
hsa-let-7f-2/Upstream/169169; hsa-mir-105-1/Downstream/1947582;
Nearest TSS
ENST00000429181/Upstream/71902; ENST00000478471/Downstream/47214;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/222189, chrX-CpG: 104/Downstream/46742
Upstream sequence
gataggttcactggtaaattctactaaacatttaaggaagaaattatatcaattctttacaatctcttccaaaacacagaagcagagagaatacatactt
Downstream sequence
cctaactcattttatgaagccagaattatcccaatacccaaaccaaagacattacaagaaaactacaaaccaatatctctaatgaacatagttacaaaaa
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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