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VISDB
Viral Integration Site DataBase
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TVIS30005890
Basic Information
VIS ID
TVIS30005890
Fusion event
HIV-RNF121 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
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
71644845/71933799 (Hg38)
End
71644845/71933799 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RNF121
miRNAs that regulate target gene
hsa-mir-335-5p
;
hsa-mir-92a-3p
;
hsa-mir-4417
;
hsa-mir-6748-5p
;
hsa-mir-654-5p
;
hsa-mir-4483
;
hsa-mir-541-3p
;
hsa-mir-1293
;
hsa-mir-6766-5p
;
hsa-mir-6756-5p
;
hsa-mir-6745
;
hsa-mir-363-5p
;
hsa-mir-4745-5p
;
hsa-mir-4481
;
hsa-mir-6127
;
hsa-mir-7515
;
hsa-mir-3185
;
hsa-mir-9500
;
hsa-mir-3154
;
hsa-mir-6768-5p
;
hsa-mir-3941
;
hsa-mir-521
;
hsa-mir-603
;
hsa-mir-362-3p
;
hsa-mir-329-3p
;
hsa-mir-8485
;
hsa-mir-1252-5p
;
hsa-mir-3688-5p
;
hsa-mir-498
;
hsa-mir-891a-3p
Nearest miRNA
hsa-mir-10392/Upstream/460231; hsa-let-7a-2/Downstream/138429;
Nearest TSS
ENST00000527297/Upstream/4717;
ENST00000526903/Downstream/23440;
Nearest CpG islands
None/Target,
chr11-CpG: 30/Upstream/119992
,
chr11-CpG: 51/Downstream/146540
Upstream sequence
tgccttcctcactagactgtaagcttcgtgagagagcagagtccaagtgtatcttgctcaccattgtattctcttcactctgcatgttcctggcatacag
Downstream sequence
taggcacccaataagtatttgATAATCGTTGTTTTTGATTAATAGTATGATagctaccatttactggatgtttgtgatatgccagctcctctgcctaatg
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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