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TVIS30010614
Basic Information
VIS ID
TVIS30010614
Fusion event
HIV-OPA3 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
q13.32
Reference genome
GRCh37/hg19
Start
46082919/45579661 (Hg38)
End
46082919/45579661 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
OPA3
miRNAs that regulate target gene
hsa-mir-1229-3p
;
hsa-mir-484
;
hsa-mir-3615
;
hsa-mir-6516-5p
;
hsa-mir-6780a-5p
;
hsa-mir-6779-5p
;
hsa-mir-3689c
;
hsa-mir-3689b-3p
;
hsa-mir-3689a-3p
;
hsa-mir-30b-3p
;
hsa-mir-1273h-5p
;
hsa-mir-455-3p
;
hsa-mir-500a-3p
;
hsa-mir-6807-5p
;
hsa-mir-4650-3p
;
hsa-mir-6799-5p
;
hsa-mir-6883-5p
;
hsa-mir-6785-5p
;
hsa-mir-4728-5p
;
hsa-mir-149-3p
;
hsa-mir-7106-5p
;
hsa-mir-661
;
hsa-mir-6499-3p
;
hsa-mir-767-5p
;
hsa-mir-98-5p
;
hsa-mir-4458
;
hsa-mir-4500
;
hsa-let-7i-5p
;
hsa-let-7g-5p
;
hsa-let-7f-5p
;
hsa-let-7e-5p
;
hsa-let-7d-5p
;
hsa-let-7c-5p
;
hsa-let-7b-5p
;
hsa-let-7a-5p
;
hsa-mir-6823-3p
;
hsa-mir-4537
;
hsa-mir-2114-3p
;
hsa-mir-5186
;
hsa-mir-3192-5p
;
hsa-mir-92b-3p
;
hsa-mir-92a-3p
;
hsa-mir-367-3p
;
hsa-mir-363-3p
;
hsa-mir-32-5p
;
hsa-mir-25-3p
;
hsa-mir-6831-5p
;
hsa-mir-3927-3p
;
hsa-mir-495-5p
;
hsa-mir-542-3p
;
hsa-mir-4504
;
hsa-mir-4764-5p
;
hsa-mir-6077
;
hsa-mir-7-5p
;
hsa-mir-4462
;
hsa-mir-1252-5p
;
hsa-mir-4501
;
hsa-mir-1265
;
hsa-mir-7849-3p
;
hsa-mir-640
;
hsa-mir-203b-3p
;
hsa-mir-7158-3p
;
hsa-mir-378a-5p
;
hsa-mir-4680-5p
;
hsa-mir-4635
;
hsa-mir-3922-3p
;
hsa-mir-3653-5p
;
hsa-mir-3176
;
hsa-mir-3934-5p
;
hsa-mir-764
;
hsa-mir-3620-3p
;
hsa-mir-125a-3p
;
hsa-mir-504-5p
;
hsa-mir-6878-3p
;
hsa-mir-4757-5p
;
hsa-mir-6744-3p
;
hsa-mir-6778-3p
;
hsa-mir-6836-3p
;
hsa-mir-6881-3p
;
hsa-mir-6780a-3p
;
hsa-mir-7111-3p
;
hsa-mir-6829-3p
;
hsa-mir-6791-3p
;
hsa-mir-136-5p
;
hsa-mir-4264
;
hsa-mir-4797-3p
;
hsa-mir-6747-3p
;
hsa-mir-6769b-3p
;
hsa-mir-3183
;
hsa-mir-4723-3p
;
hsa-mir-6752-3p
;
hsa-mir-1910-5p
;
hsa-mir-10b-5p
;
hsa-mir-10a-5p
Nearest miRNA
hsa-mir-10395/Upstream/142957; hsa-let-7e/Downstream/59333;
Nearest TSS
ENST00000633603/Upstream/53867;
ENST00000591322/Downstream/5158;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/25770
,
chr19-CpG: 50/Downstream/4947
Upstream sequence
tgtaaggtacctgagggcaagatgttttgctttttcctgcctgttgtatctataacatctacgtgacagccatgaccctatgccaggcactgacttaaca
Downstream sequence
ttttatatccatttacttaatcctcaccacaacacaataaatattattTACAGCATAATGCATACATAGTATATACACAAaataataataataataataa
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
Jurkat CD4+
Sample type
Cell line
Gender
Female
CpG Island Information
×
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