Basic Information
VIS ID
TVIS30006780
Fusion event
HIV-NDE1 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
p13.11
Reference genome
GRCh37/hg19
Start
15792308/15698451 (Hg38)
End
15792308/15698451 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA16A
Target gene
NDE1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-30a-5p ; hsa-mir-877-5p ; hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-423-5p ; hsa-mir-296-3p ; hsa-mir-769-5p ; hsa-mir-652-3p ; hsa-mir-423-3p ; hsa-mir-151a-3p ; hsa-mir-378a-3p ; hsa-mir-181b-5p ; hsa-mir-100-5p ; hsa-mir-99a-5p ; hsa-mir-25-3p ; hsa-mir-3196
Nearest miRNA
hsa-mir-1225/Upstream/55079; hsa-mir-11401/Downstream/601708;
Nearest TSS
ENST00000527434/Upstream/7209; ENST00000624682/Downstream/2786;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/47885, chr16-CpG: 44/Downstream/158531
Upstream sequence
ccagccactgcactccagcctgggtgatgaagcgagaccttgtctcagaaaaaaaaGGGGCAGCTTTCAGATTCAGGAATTCTGCAAGGTGTGTGACTAC
Downstream sequence
CATCTCTCTGGGCCCCAAGCCGTAGGAATTTGATGGGTTTGTAGCAGACACGTGACAGGAAATTAAGAATATTTTCCATGGCATGCACATAACTTTGAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate