Basic Information
VIS ID
TVIS30005832
Fusion event
HIV-NEAT1 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
chr11
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
65203691/65436220 (Hg38)
End
65203691/65436220 (Hg38)
Orient
+
Location type
ncRNA_exonic
Fragile sites / regions
FRA11H
Target gene
NEAT1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-449b-5p
Nearest miRNA
hsa-mir-10392/Upstream/306242; hsa-let-7a-2/Downstream/8238;
Nearest TSS
ENST00000527297/Upstream/10669; ENST00000620902/Downstream/51916;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/12633, chr11-CpG: 26/Downstream/18799
Nearest cancer related gene
NEAT1(OG, No orient, 0)
Upstream sequence
GGCTCTGGCTCTTACCTCATAGGGTCACTCATAGGGGCACAGGGAGCAGAACATTGTACACAGCGAGGCACCACCCGGCTTGGCATCTGCCTCGGTGGAC
Downstream sequence
TTACTACCTCTAGAAGGAAATACCTGAGTTCCTCTGGCCTCAGCTCCTAGAGTGACTGGTGTGCTGTCCCTGTTACTCTTCTGTCAAGGTGACAACTGTG
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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