Basic Information
VIS ID
TVIS30003801
Fusion event
HIV-NUP153 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
chr6
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
17682026/17681795 (Hg38)
End
17682026/17681795 (Hg38)
Orient
-
Location type
Intronic
Target gene
NUP153
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-26b-5p ; hsa-mir-744-5p ; hsa-mir-106b-3p ; hsa-mir-330-3p ; hsa-mir-93-5p ; hsa-mir-23a-3p ; hsa-let-7b-5p ; hsa-mir-4696 ; hsa-mir-125a-3p ; hsa-mir-6888-5p ; hsa-mir-4524b-3p ; hsa-mir-552-3p ; hsa-mir-5680
Nearest miRNA
hsa-mir-3691/Upstream/1540171; hsa-mir-10398/Downstream/889989;
Nearest TSS
ENST00000381078/Upstream/81440; ENST00000606771/Downstream/24462;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/80629, chr6-CpG: 117/Downstream/24266
Upstream sequence
AATCAGGATTTACATACACATAGGTTGAAATGTTTCCCAGGGTATCAAGTATTCCAATATTACTGTAGTATATTACACTATGAACATGCTTTTTACTTAT
Downstream sequence
CCCATTCTCTCATCCCTGCATCAGTTTCTCCTATAGGAGAAAAGTGATAGGATAATTTTCTAACTCTTGGCAGACATCAACTAAACCTAGTATATACAGA
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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