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VISDB
Viral Integration Site DataBase
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TVIS30007400
Basic Information
VIS ID
TVIS30007400
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
7491917/7427031 (Hg38)
End
7491917/7427031 (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/690253; hsa-let-7e/Downstream/190408;
Nearest TSS
ENST00000633603/Upstream/31879;
ENST00000595600/Downstream/12657;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/31541
,
chr19-CpG: 31/Downstream/13006
Upstream sequence
GTTGAAAGGTTCTACAGAGCCTTCTGAGTCTCAGAGAAAGTTAAGTTTGAATTCTTGGGGTGGAGGAGCCGAGGTCAGGCACTTTGGGGTTAGAGGTGAC
Downstream sequence
CCTGGCCTCCTTTTTCCCTCTCGTAAGCTCGAGGTGGGGAAAACCCAGAACCCCCACTGCAGGCAAGAATGTGGTTCCATCTGGCCTTTTTGCTGTCGCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Sample Information
×
Sample name
Central Memory CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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