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TVIS30002794
Basic Information
VIS ID
TVIS30002794
Fusion event
HIV-SMURF2 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
chr17
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
62635891/64639773 (Hg38)
End
62635891/64639773 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMURF2
miRNAs that regulate target gene
hsa-mir-122-5p
;
hsa-mir-16-5p
;
hsa-mir-630
;
hsa-mir-511-5p
;
hsa-mir-203a-3p
;
hsa-mir-4670-3p
;
hsa-mir-93-3p
;
hsa-mir-382-5p
;
hsa-mir-431-5p
;
hsa-mir-526b-5p
;
hsa-mir-4635
;
hsa-mir-665
;
hsa-mir-4495
;
hsa-mir-3667-5p
;
hsa-mir-6807-5p
;
hsa-mir-6872-3p
;
hsa-mir-378a-5p
;
hsa-mir-4454
;
hsa-mir-6821-3p
;
hsa-mir-6790-3p
;
hsa-mir-3653-5p
;
hsa-mir-7107-5p
;
hsa-mir-1234-3p
;
hsa-mir-1224-3p
;
hsa-mir-186-3p
;
hsa-mir-3934-5p
;
hsa-mir-764
;
hsa-mir-125a-3p
Nearest miRNA
hsa-mir-10226/Upstream/138460; hsa-mir-1250/Downstream/140986;
Nearest TSS
ENST00000595228/Upstream/41328;
ENST00000577938/Downstream/21089;
Nearest CpG islands
None/Target,
chr17-CpG: 26/Upstream/132325
,
chr17-CpG: 112/Downstream/21518
Upstream sequence
cccatgggacttggagaagacacatatgcctccctaagcaattttctcacctaaaatggggaagtttaagtcagactataaactctaagacttctttcca
Downstream sequence
gTAGTCACTCAAGAAATACTTCCCAAGTACCCGTTACTGTTTGGCATCACATTAGGTAAATGAAACACACACACAATCCCTGCCCTGTGGGTGCTCCCCA
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
Active CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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