Basic Information
VIS ID
TVIS30010591
Fusion event
HIV-RAB3D 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
p13.2
Reference genome
GRCh37/hg19
Start
11433156/11322480 (Hg38)
End
11433156/11322480 (Hg38)
Orient
-
Location type
UTR3
Fragile sites / regions
FRA19B
Target gene
RAB3D
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-508-5p ; hsa-mir-6736-5p ; hsa-mir-4701-3p ; hsa-mir-1262 ; hsa-mir-7703 ; hsa-mir-500a-3p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-542-3p ; hsa-mir-4792 ; hsa-mir-661 ; hsa-mir-767-5p ; hsa-mir-610 ; hsa-mir-6776-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-6742-3p ; hsa-mir-1273g-3p ; hsa-mir-92b-3p ; hsa-mir-92a-3p ; hsa-mir-367-3p ; hsa-mir-363-3p ; hsa-mir-32-5p ; hsa-mir-25-3p
Nearest miRNA
hsa-mir-1181/Upstream/208946; hsa-let-7e/Downstream/173064;
Nearest TSS
ENST00000633603/Upstream/15756; ENST00000589186/Downstream/17188;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/28380, chr19-CpG: 38/Downstream/16860
Upstream sequence
CCTGTGGTCATGGCAATTTCCCATCAAAACTGCCCATGTAAAATAAACACAAGCTGCTAAAAGTGAATGTTAAGAAGGAAGGCACTGGTTAGTGGGTGGT
Downstream sequence
CCTGACCAATCCCCTGGAGCTGGAGAGGGGTTTTCCCACGGCCTTTGGTTTAATGTGTCTGTAAACTCAACAAACCTCCGTTTCCCTGAGGTAATCTGCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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