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TVIS30012835
Basic Information
VIS ID
TVIS30012835
Fusion event
HIV-RNF24 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
3953657/3973010 (Hg38)
End
3953657/3973010 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF24
miRNAs that regulate target gene
hsa-mir-26b-5p
;
hsa-mir-4762-3p
;
hsa-mir-5585-5p
;
hsa-mir-548ax
;
hsa-mir-548ao-5p
;
hsa-mir-6513-5p
;
hsa-mir-887-5p
;
hsa-mir-3913-5p
;
hsa-mir-3122
;
hsa-mir-450a-1-3p
;
hsa-mir-6780a-5p
;
hsa-mir-6779-5p
;
hsa-mir-3689c
;
hsa-mir-3689b-3p
;
hsa-mir-3689a-3p
;
hsa-mir-30b-3p
;
hsa-mir-1273h-5p
;
hsa-mir-6788-5p
;
hsa-mir-30c-2-3p
;
hsa-mir-30c-1-3p
;
hsa-mir-7977
;
hsa-mir-6799-5p
;
hsa-mir-6883-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-7106-5p
;
hsa-mir-4736
;
hsa-mir-3665
;
hsa-mir-383-3p
;
hsa-mir-3922-5p
;
hsa-mir-940
;
hsa-mir-6893-5p
;
hsa-mir-6808-5p
;
hsa-mir-3714
;
hsa-mir-24-3p
;
hsa-mir-4284
;
hsa-mir-5693
;
hsa-mir-4683
;
hsa-mir-4786-5p
;
hsa-mir-4738-3p
;
hsa-mir-664a-5p
;
hsa-mir-4794
;
hsa-mir-8073
;
hsa-mir-221-5p
;
hsa-mir-6827-3p
;
hsa-mir-340-3p
;
hsa-mir-4793-5p
;
hsa-mir-4433a-3p
;
hsa-mir-4459
;
hsa-mir-4768-3p
;
hsa-mir-6888-5p
;
hsa-mir-6502-3p
;
hsa-mir-433-5p
;
hsa-mir-1199-5p
;
hsa-mir-340-5p
;
hsa-mir-3936
;
hsa-mir-4303
;
hsa-mir-4444
;
hsa-mir-615-5p
;
hsa-mir-6751-3p
;
hsa-mir-6807-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/55439; hsa-mir-1-1/Downstream/3398598;
Nearest TSS
ENST00000382410/Upstream/43788;
ENST00000493223/Downstream/1377;
Nearest CpG islands
None/Target,
chr20-CpG: 39/Upstream/83087
,
chr20-CpG: 105/Downstream/41916
Upstream sequence
aaaaaaaaaGggctggacgggatggctcacgcctgtaatctcagcactttgggaggccgaggcgggtggatcacatgaggttaggagtttgagaccagcc
Downstream sequence
tagccaactaggtaaaaccccgtctctactaaaaacacaaaaattagctgggtgtggtggcaggtgcctgtaatcccagctactcgggaggctgaggcag
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
Resting CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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