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Viral Integration Site DataBase
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TVIS30008559
Basic Information
VIS ID
TVIS30008559
Fusion event
HIV-RBPJ 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
chr4
Cytoband
p15.2
Reference genome
GRCh37/hg19
Start
26383002/26381380 (Hg38)
End
26383002/26381380 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
RBPJ
miRNAs that regulate target gene
hsa-mir-375
;
hsa-mir-155-5p
;
hsa-mir-124-3p
;
hsa-mir-18a-5p
;
hsa-let-7b-5p
;
hsa-mir-15a-5p
;
hsa-mir-16-5p
;
hsa-mir-32-3p
;
hsa-mir-15b-5p
;
hsa-mir-195-5p
;
hsa-mir-424-5p
;
hsa-mir-497-5p
;
hsa-mir-545-3p
;
hsa-mir-3609
;
hsa-mir-548ah-5p
;
hsa-mir-3064-3p
;
hsa-mir-6838-5p
;
hsa-mir-6077
;
hsa-mir-4468
;
hsa-mir-193b-5p
;
hsa-mir-561-3p
;
hsa-mir-619-3p
;
hsa-mir-4774-5p
;
hsa-mir-5585-3p
;
hsa-mir-6765-3p
;
hsa-mir-490-3p
;
hsa-mir-548d-3p
;
hsa-mir-548h-3p
;
hsa-mir-548z
;
hsa-mir-548ac
;
hsa-mir-548bb-3p
;
hsa-mir-218-5p
;
hsa-mir-8061
;
hsa-mir-4760-5p
;
hsa-mir-4715-3p
;
hsa-mir-532-5p
;
hsa-mir-3923
;
hsa-mir-302f
;
hsa-mir-186-5p
;
hsa-mir-3133
;
hsa-mir-7-5p
;
hsa-mir-4446-5p
;
hsa-mir-6814-5p
;
hsa-mir-3622b-3p
;
hsa-mir-3622a-3p
;
hsa-mir-133a-3p
;
hsa-mir-153-5p
;
hsa-mir-1910-3p
;
hsa-mir-208a-5p
;
hsa-mir-208b-5p
;
hsa-mir-2467-3p
;
hsa-mir-25-3p
;
hsa-mir-3140-3p
;
hsa-mir-320a
;
hsa-mir-320b
;
hsa-mir-320c
;
hsa-mir-320d
;
hsa-mir-32-5p
;
hsa-mir-363-3p
;
hsa-mir-367-3p
;
hsa-mir-3680-3p
;
hsa-mir-3714
;
hsa-mir-4429
;
hsa-mir-450b-5p
;
hsa-mir-4708-3p
;
hsa-mir-4742-5p
;
hsa-mir-507
;
hsa-mir-557
;
hsa-mir-6511a-5p
;
hsa-mir-6511b-5p
;
hsa-mir-6809-5p
;
hsa-mir-6811-5p
;
hsa-mir-92a-3p
;
hsa-mir-92b-3p
;
hsa-mir-9-3p
;
hsa-mir-2681-5p
;
hsa-mir-4318
;
hsa-mir-4474-3p
;
hsa-mir-4693-5p
;
hsa-mir-6815-3p
;
hsa-mir-892a
Nearest miRNA
hsa-mir-12113/Upstream/1861090; hsa-mir-1243/Downstream/2438202;
Nearest TSS
ENST00000502981/Upstream/18850;
ENST00000506903/Downstream/39190;
Nearest CpG islands
None/Target,
chr4-CpG: 46/Upstream/21591
,
chr4-CpG: 24/Downstream/202562
Upstream sequence
ATACCTCCTCTGTGAGCAAAACAGAAGTATATATATTAATGTGTATGCAGGTTTTTTACTTACTTGAAAATTCTAATGGATTGGAGGATATGTGGGAACC
Downstream sequence
TCAATACTATTTACAGGTAGGAAGCACCATGTTTAACGATAGATTGCAGCTTAAAAAAAATCTCATACTTCCAGGTGTATGAAATCAGATTTACCTACAC
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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