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VISDB
Viral Integration Site DataBase
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TVIS30009085
Basic Information
VIS ID
TVIS30009085
Fusion event
HIV-ICK 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
chr6
Cytoband
p12.1
Reference genome
GRCh37/hg19
Start
52896653/53031855 (Hg38)
End
52896653/53031855 (Hg38)
Orient
-
Location type
Intronic
Target gene
ICK
miRNAs that regulate target gene
hsa-mir-215-5p
;
hsa-mir-192-5p
;
hsa-mir-101-3p
;
hsa-mir-4760-3p
;
hsa-mir-3942-3p
;
hsa-mir-449c-3p
;
hsa-mir-27b-3p
;
hsa-mir-27a-3p
;
hsa-mir-513a-5p
;
hsa-mir-6825-5p
;
hsa-mir-7106-5p
;
hsa-mir-766-5p
;
hsa-mir-6077
;
hsa-mir-8086
;
hsa-mir-6770-5p
;
hsa-mir-3179
;
hsa-mir-4310
;
hsa-mir-7157-5p
;
hsa-mir-4756-3p
;
hsa-mir-3919
;
hsa-mir-205-3p
;
hsa-mir-3154
;
hsa-mir-943
;
hsa-mir-4439
;
hsa-mir-3136-5p
;
hsa-mir-6516-3p
;
hsa-mir-3152-3p
;
hsa-mir-205-5p
;
hsa-mir-892a
;
hsa-mir-6715b-3p
;
hsa-mir-6715a-3p
;
hsa-mir-548c-3p
Nearest miRNA
hsa-mir-10398/Upstream/882814; hsa-mir-10524/Downstream/245138;
Nearest TSS
ENST00000381078/Upstream/36477;
ENST00000461222/Downstream/20136;
Nearest CpG islands
None/Target,
chr6-CpG: 120/Upstream/36886
,
chr6-CpG: 67/Downstream/29625
Upstream sequence
CTAGTTGCTCTGCCCATATGTCCTAGTGATAATGGAAAACTGCAATGTCTATTAAGTCTGAGCTTCTTTGGATGAATAACTCttcttttttttttgagat
Downstream sequence
ggagtttcgccgttgttgaccaggctggagtgcaatggtgcgatgtccgctcaccccaacctctgcctcccatgttcaagtgattctcctgcctcagtat
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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