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TVIS30006759
Basic Information
VIS ID
TVIS30006759
Fusion event
HIV-GRIN2A 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
chr16
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
10117209/10023352 (Hg38)
End
10117209/10023352 (Hg38)
Orient
-
Location type
Intronic
Target gene
GRIN2A
miRNAs that regulate target gene
hsa-mir-125b-5p
;
hsa-mir-3915
;
hsa-mir-4710
;
hsa-mir-657
;
hsa-mir-3679-5p
;
hsa-mir-3665
;
hsa-mir-1185-5p
;
hsa-mir-3928-3p
;
hsa-mir-125a-3p
;
hsa-mir-583
;
hsa-mir-192-3p
;
hsa-mir-6806-5p
;
hsa-mir-5189-3p
;
hsa-mir-4482-5p
;
hsa-mir-3130-5p
;
hsa-mir-1912
;
hsa-mir-1295b-5p
;
hsa-mir-5589-3p
;
hsa-mir-216a-5p
;
hsa-mir-216b-5p
;
hsa-mir-4753-3p
;
hsa-mir-130b-5p
;
hsa-mir-616-5p
;
hsa-mir-373-5p
;
hsa-mir-371b-5p
;
hsa-mir-6769b-3p
;
hsa-mir-4723-3p
;
hsa-mir-3183
;
hsa-mir-6840-3p
;
hsa-mir-873-5p
;
hsa-mir-1228-3p
;
hsa-mir-3914
;
hsa-mir-6800-3p
;
hsa-mir-1276
;
hsa-mir-519e-5p
;
hsa-mir-515-5p
;
hsa-mir-3941
;
hsa-mir-2355-5p
;
hsa-mir-136-5p
;
hsa-mir-603
;
hsa-mir-362-3p
;
hsa-mir-8485
;
hsa-mir-329-3p
;
hsa-mir-148a-5p
;
hsa-mir-3123
;
hsa-mir-3154
;
hsa-mir-3925-5p
;
hsa-mir-411-5p
;
hsa-mir-5010-3p
;
hsa-mir-6770-5p
;
hsa-mir-6832-5p
;
hsa-mir-7515
Nearest miRNA
hsa-mir-1225/Upstream/4390786; hsa-mir-11401/Downstream/1283088;
Nearest TSS
ENST00000527434/Upstream/52557;
ENST00000569218/Downstream/4348;
Nearest CpG islands
None/Target,
chr16-CpG: 29/Upstream/930520
,
chr16-CpG: 282/Downstream/156734
Nearest cancer related gene
GRIN2A
(TSG, No orient, 0)
Upstream sequence
CAAATCTGAAATAACTCATCCAACTGAGGCAGGGCTCTATAAACAACAGACAAGTAAAATACATTGAATAAATATTACATAATCTATTTTCTTTAGTGGT
Downstream sequence
TGTGTCTGTATATATGTGGGTACATTCAGGTGTGGtttttacaatgacccttcgaagtgggtattataattacaactttatatgtgagaaaactaaggtt
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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