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TVIS30013174
Basic Information
VIS ID
TVIS30013174
Fusion event
HIV-ATP13A4 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
q29
Reference genome
GRCh37/hg19
Start
193305722/193587933 (Hg38)
End
193305722/193587933 (Hg38)
Orient
+
Location type
Intronic
Target gene
ATP13A4
miRNAs that regulate target gene
hsa-mir-9-3p
;
hsa-mir-4480
;
hsa-mir-3659
;
hsa-mir-922
;
hsa-mir-759
;
hsa-mir-6513-3p
;
hsa-mir-595
;
hsa-mir-4497
;
hsa-mir-1257
;
hsa-mir-3650
;
hsa-mir-4722-5p
;
hsa-mir-1827
;
hsa-mir-4790-3p
;
hsa-mir-4649-3p
;
hsa-mir-4768-3p
;
hsa-mir-940
;
hsa-mir-6893-5p
;
hsa-mir-6808-5p
;
hsa-mir-665
;
hsa-mir-7160-5p
;
hsa-mir-6884-5p
;
hsa-mir-485-5p
;
hsa-mir-4478
;
hsa-mir-3929
;
hsa-mir-4419b
;
hsa-mir-550b-2-5p
;
hsa-mir-7703
;
hsa-mir-1287-3p
;
hsa-mir-1227-3p
;
hsa-mir-661
;
hsa-mir-4252
;
hsa-mir-5186
;
hsa-mir-4793-3p
;
hsa-mir-1251-5p
;
hsa-mir-1273g-3p
;
hsa-mir-596
;
hsa-mir-4293
;
hsa-mir-5684
;
hsa-mir-5591-3p
;
hsa-mir-4679
;
hsa-mir-4286
;
hsa-mir-6729-3p
;
hsa-mir-660-5p
;
hsa-mir-7843-3p
;
hsa-mir-4786-3p
Nearest miRNA
hsa-let-7g/Upstream/3757924; hsa-mir-3137/Downstream/1546573;
Nearest TSS
ENST00000440867/Upstream/32811;
ENST00000419435/Downstream/5178;
Nearest CpG islands
None/Target,
chr3-CpG: 148/Upstream/346349
,
chr3-CpG: 39/Downstream/5102
Nearby gene
OPA1
(No orient, 5211)
Upstream sequence
TATGCCATAATCCCAAAAATAtggcttaaacccataatcccagcactttgggaggctgaggcaagaggatctctggagcccaggagttcaagacaagtct
Downstream sequence
gggcaacataggagacccagtgtctgaaaatatatatatatatttaaaaattagccaggcatggtgatatatgtctgccgtcccatctacttaagaggct
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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