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TVIS30003465
Basic Information
VIS ID
TVIS30003465
Fusion event
HIV-SH3BP5 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
chr3
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
15330224/15288717 (Hg38)
End
15330224/15288717 (Hg38)
Orient
+
Location type
Intronic
Target gene
SH3BP5
miRNAs that regulate target gene
hsa-mir-130b-3p
;
hsa-mir-103a-3p
;
hsa-mir-193b-3p
;
hsa-mir-323b-3p
;
hsa-mir-195-3p
;
hsa-mir-16-2-3p
;
hsa-mir-656-3p
;
hsa-mir-7702
;
hsa-mir-568
;
hsa-mir-151a-3p
;
hsa-mir-4522
;
hsa-mir-4463
;
hsa-mir-4499
;
hsa-mir-5089-5p
;
hsa-mir-6878-3p
;
hsa-mir-7151-3p
;
hsa-mir-5095
;
hsa-mir-6744-3p
;
hsa-mir-4757-5p
;
hsa-mir-5589-5p
;
hsa-mir-4731-5p
;
hsa-mir-6778-3p
;
hsa-mir-6506-5p
;
hsa-mir-619-5p
;
hsa-mir-150-5p
;
hsa-mir-212-5p
;
hsa-mir-186-3p
;
hsa-mir-6849-3p
;
hsa-mir-1226-3p
;
hsa-mir-520h
;
hsa-mir-520g-3p
;
hsa-mir-6504-3p
;
hsa-mir-4438
;
hsa-mir-520e
;
hsa-mir-520d-3p
;
hsa-mir-520c-3p
;
hsa-mir-520b
;
hsa-mir-520a-3p
;
hsa-mir-373-3p
;
hsa-mir-372-3p
;
hsa-mir-302e
;
hsa-mir-302d-3p
;
hsa-mir-302c-3p
;
hsa-mir-302b-3p
;
hsa-mir-302a-3p
;
hsa-mir-526b-3p
;
hsa-mir-519d-3p
;
hsa-mir-20b-5p
;
hsa-mir-106b-5p
;
hsa-mir-20a-5p
;
hsa-mir-17-5p
;
hsa-mir-93-5p
;
hsa-mir-106a-5p
;
hsa-mir-340-5p
Nearest miRNA
hsa-mir-12127/Upstream/4894155; hsa-let-7g/Downstream/207522;
Nearest TSS
ENST00000440867/Upstream/12672;
ENST00000449565/Downstream/43346;
Nearest CpG islands
None/Target,
chr3-CpG: 148/Upstream/81904
,
chr3-CpG: 100/Downstream/43090
Upstream sequence
atggtggtatgcacctgtaaggtgaggtgggaggactgtttgagtctgggaggcagaggttgcagtgagccgggattgcaccactgcactccagcctggg
Downstream sequence
tgacagaatgagagaccctgtctcaaaaacaaaacaaacaaacaaaaaaaGGCTATTTCAATGCTCTGGGTAAGACATGAGGGATTGCACCAAAAAAGTG
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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