Basic Information
VIS ID
TVIS30002941
Fusion event
HIV-ARHGEF18 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
7430463/7365577 (Hg38)
End
7430463/7365577 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ARHGEF18
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-24-3p ; hsa-mir-221-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-1469 ; hsa-mir-4741 ; hsa-mir-4675 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-3202 ; hsa-mir-3135a ; hsa-mir-4632-3p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-6857-3p ; hsa-mir-4329 ; hsa-mir-4446-3p ; hsa-mir-9500
Nearest miRNA
hsa-mir-1227/Upstream/628799; hsa-let-7e/Downstream/251862;
Nearest TSS
ENST00000633603/Upstream/16634; ENST00000599752/Downstream/17257;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/70480, chr19-CpG: 65/Downstream/29316
Nearby gene
ARHGEF18(No orient, 29536)
Upstream sequence
GGTAAAGGATCACAGAACCAGGACTGGAGTTTAGCCCTGCGCCCTCCCTGGGATCTGGACCTCTTTGAAAGAGAACCATGGGATGCAGGCAGTTGGACAG
Downstream sequence
GTAACACGGCAATGGGGGAACGGTGGGCTCTGGGGAAGCAGGCAGGCCTGTGAGTAGGCAGCAAGGCTGTGCCCCCACCCGCTGGCAAATCTGCCCCCTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate