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Viral Integration Site DataBase
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TVIS30013631
Basic Information
VIS ID
TVIS30013631
Fusion event
HIV-TNFRSF10A 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
chr8
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
23069597/23212084 (Hg38)
End
23069597/23212084 (Hg38)
Orient
-
Location type
Intronic
Target gene
TNFRSF10A
miRNAs that regulate target gene
hsa-mir-155-5p
;
hsa-mir-16-5p
;
hsa-mir-96-5p
;
hsa-mir-1271-5p
;
hsa-mir-182-5p
;
hsa-mir-6736-5p
;
hsa-mir-4701-3p
;
hsa-mir-1262
;
hsa-mir-183-5p
;
hsa-mir-340-5p
;
hsa-mir-5002-5p
;
hsa-mir-5590-3p
;
hsa-mir-142-5p
;
hsa-mir-583
;
hsa-mir-186-5p
;
hsa-mir-3133
;
hsa-mir-3152-5p
;
hsa-mir-4774-3p
;
hsa-mir-4524a-3p
;
hsa-mir-483-3p
;
hsa-mir-5581-5p
;
hsa-mir-4297
;
hsa-mir-34a-5p
;
hsa-mir-106b-5p
;
hsa-mir-1238-5p
;
hsa-mir-1270
;
hsa-mir-1273g-3p
;
hsa-mir-25-5p
;
hsa-mir-3064-3p
;
hsa-mir-3174
;
hsa-mir-4252
;
hsa-mir-4327
;
hsa-mir-4459
;
hsa-mir-4481
;
hsa-mir-455-3p
;
hsa-mir-4683
;
hsa-mir-4695-5p
;
hsa-mir-4715-3p
;
hsa-mir-4745-5p
;
hsa-mir-4758-5p
;
hsa-mir-6087
;
hsa-mir-620
;
hsa-mir-6499-3p
;
hsa-mir-6501-5p
;
hsa-mir-6516-5p
;
hsa-mir-665
;
hsa-mir-6840-3p
Nearest miRNA
hsa-mir-124-1/Upstream/967047; hsa-mir-10400/Downstream/1741712;
Nearest TSS
ENST00000518652/Upstream/14811;
ENST00000519984/Downstream/12516;
Nearest CpG islands
None/Target,
chr8-CpG: 109/Upstream/48009
,
chr8-CpG: 74/Downstream/12359
Nearest cancer related gene
TNFRSF10A
(TSG, No orient, 0)
Upstream sequence
CTGTAGGAAACAGAAAACTTGAAGAACATGGAAAAGGAATGTTATTGATGAATTTTGAGATAATTTTTGTATATAGTATAGGGTAAGGAAAAGAGAGGTG
Downstream sequence
TAAAGGATTAGAGATCAGTCTTAGAATGTACCTGGTGGACACAACTCTCCCAAAGGGCTATGTTCCCATTGCTGTGTGCCAATTGATTGATCATGAAGTT
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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