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TVIS30012482
Basic Information
VIS ID
TVIS30012482
Fusion event
HIV-ARID3A 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
963721/963721 (Hg38)
End
963721/963721 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ARID3A
miRNAs that regulate target gene
hsa-let-7b-5p
;
hsa-mir-30b-5p
;
hsa-mir-98-5p
;
hsa-let-7d-5p
;
hsa-mir-484
;
hsa-mir-425-3p
;
hsa-mir-125b-5p
;
hsa-mir-30a-5p
;
hsa-mir-148a-3p
;
hsa-mir-30c-5p
;
hsa-mir-30d-5p
;
hsa-mir-152-3p
;
hsa-mir-30e-5p
;
hsa-mir-148b-3p
;
hsa-mir-3171
;
hsa-mir-6757-5p
;
hsa-mir-8485
;
hsa-let-7c-5p
;
hsa-mir-6722-3p
;
hsa-mir-1909-3p
;
hsa-mir-6836-5p
;
hsa-mir-6132
;
hsa-mir-202-3p
;
hsa-mir-4500
;
hsa-let-7f-5p
;
hsa-let-7g-5p
;
hsa-mir-4458
;
hsa-let-7i-5p
;
hsa-let-7a-5p
;
hsa-let-7e-5p
;
hsa-mir-1277-5p
;
hsa-mir-190a-3p
;
hsa-mir-5011-5p
;
hsa-mir-6083
;
hsa-mir-4753-3p
;
hsa-mir-130b-5p
;
hsa-mir-1238-3p
;
hsa-mir-670-3p
;
hsa-mir-6749-3p
;
hsa-mir-6792-3p
;
hsa-mir-4691-5p
;
hsa-mir-660-3p
;
hsa-mir-5193
;
hsa-mir-7856-5p
;
hsa-mir-556-3p
;
hsa-mir-6809-3p
;
hsa-mir-99b-5p
;
hsa-mir-125a-5p
;
hsa-mir-129-5p
;
hsa-mir-3140-3p
;
hsa-mir-6885-3p
Nearest miRNA
hsa-mir-1302-11/Upstream/150068; hsa-let-7e/Downstream/852438;
Nearest TSS
ENST00000633603/Upstream/31156;
ENST00000585733/Downstream/568;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/13351
,
chr19-CpG: 43/Downstream/18968
Nearest cancer related gene
ARID3A
(OG, No orient, 0)
Upstream sequence
CTGGGCCAGCCCACCTACCGCCCTTCCCCTGCCTAGGCTAATCCTCCCCCTTTCCCTCCCTGGCATAGCGTAGCCCACAACCCTCTCCTCCTGGGCTAGC
Downstream sequence
CCAACCCCCCATGTCGGGGCTAGCCCATCCCCTTCCCCTCCCTAGGCCAGTCCACAGCCCTCCATTCTCCAGACTTGAAATTGGGTAAGCCAGGCTTTAC
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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