Basic Information
VIS ID
TVIS30010382
Fusion event
HIV-NPRL3 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
183059/133060 (Hg38)
End
183059/133060 (Hg38)
Orient
+
Location type
Intronic
Target gene
NPRL3
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-16-5p ; hsa-mir-6788-3p ; hsa-mir-6785-3p ; hsa-mir-205-5p ; hsa-mir-7850-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-6505-5p ; hsa-mir-5581-5p ; hsa-mir-4297 ; hsa-mir-4778-3p ; hsa-mir-1248 ; hsa-mir-501-5p
Nearest miRNA
hsa-mir-6859-4/Upstream/115941; hsa-mir-11401/Downstream/402256;
Nearest TSS
ENST00000527434/Upstream/7323; ENST00000252951/Downstream/5275;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/54428, chr16-CpG: 69/Downstream/5008
Upstream sequence
acccggcccaccttgcacttttacgttatagagatggtttctttccttaaatctcatgaactaacttctgctagcttccaacttttcttctgcagcttcc
Downstream sequence
ttacctctctcagccttctcagaattaaagagagttagagcctttttctggattaggctttggtttaagagaatattgtggctggcctgatctatccaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate