Basic Information
VIS ID
TVIS30011887
Fusion event
HIV-GNG2 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
chr14
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
52434620/51967902 (Hg38)
End
52434620/51967902 (Hg38)
Orient
-
Location type
UTR3
Target gene
GNG2
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-6881-3p ; hsa-mir-222-5p ; hsa-mir-942-5p ; hsa-mir-877-3p ; hsa-mir-16-1-3p
Nearest miRNA
hsa-mir-208a/Upstream/1667956; hsa-mir-1185-1/Downstream/1980525;
Nearest TSS
ENST00000550708/Upstream/49331; ENST00000553707/Downstream/1898;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/315132, chr14-CpG: 60/Downstream/21508
Upstream sequence
AGATTAAAAGAACATTTTTTTGTGCTCTTAACAAGAAAACCATGGCCCTCCTTTGTTCAAGTATCAGAAGAAATAAACCCACAGCTCCAGAGAAGGTGAC
Downstream sequence
CATTCTCAGAACTCCAGCTATTCACTCTCCAGGGAGAAGGACCTCAAATCGCCACTCTTTGGGCGGCAGGTGCGGTCCCCACGGCCGGCTCTACGAGGAA
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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