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TVIS30008646
Basic Information
VIS ID
TVIS30008646
Fusion event
HIV-USP53 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
q26
Reference genome
GRCh37/hg19
Start
120189952/119268797 (Hg38)
End
120189952/119268797 (Hg38)
Orient
-
Location type
Intronic
Target gene
USP53
miRNAs that regulate target gene
hsa-mir-30b-5p
;
hsa-mir-16-5p
;
hsa-mir-186-3p
;
hsa-mir-323a-5p
;
hsa-mir-559
;
hsa-mir-548b-5p
;
hsa-mir-548a-5p
;
hsa-mir-548c-5p
;
hsa-mir-548d-5p
;
hsa-mir-876-3p
;
hsa-mir-374b-3p
;
hsa-mir-548j-5p
;
hsa-mir-548h-5p
;
hsa-mir-548i
;
hsa-mir-548w
;
hsa-mir-548y
;
hsa-mir-548o-5p
;
hsa-mir-548ab
;
hsa-mir-548ad-5p
;
hsa-mir-548ae-5p
;
hsa-mir-4456
;
hsa-mir-548ak
;
hsa-mir-4524a-5p
;
hsa-mir-548am-5p
;
hsa-mir-3973
;
hsa-mir-4690-3p
;
hsa-mir-548ap-5p
;
hsa-mir-4524b-5p
;
hsa-mir-548aq-5p
;
hsa-mir-548ar-5p
;
hsa-mir-548as-5p
;
hsa-mir-548au-5p
;
hsa-mir-5685
;
hsa-mir-548ay-5p
;
hsa-mir-548bb-5p
;
hsa-mir-545-3p
;
hsa-mir-3120-3p
;
hsa-mir-6504-3p
;
hsa-mir-6792-5p
;
hsa-mir-6806-5p
;
hsa-mir-646
;
hsa-mir-6838-5p
;
hsa-mir-503-5p
;
hsa-mir-497-5p
;
hsa-mir-424-5p
;
hsa-mir-195-5p
;
hsa-mir-15b-5p
;
hsa-mir-6757-3p
;
hsa-mir-15a-5p
;
hsa-mir-497-3p
;
hsa-mir-141-3p
;
hsa-mir-200a-3p
Nearest miRNA
hsa-mir-12113/Upstream/4611943; hsa-mir-1305/Downstream/6238462;
Nearest TSS
ENST00000502981/Upstream/1416;
ENST00000567343/Downstream/32124;
Nearest CpG islands
None/Target,
chr4-CpG: 46/Upstream/55663
,
chr4-CpG: 40/Downstream/31674
Upstream sequence
TCAAGGAGTTAATTATCAGCTTGGAGCAGAAAAACATGAGTTAGTAATTTGGCATAAATGCCAAAATTAAATTTACTGGTAGTGAATGCAACAGCAGTTC
Downstream sequence
AAAGTTACTATTGCTGTAGTTTGTTCTTAACCTCGTTTTTATTCAACTCTGTCTTGTTACTGTTATCCCATAACTAATTTTTACAAGCCAGGTTCTGTAA
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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