Basic Information
VIS ID
TVIS30008740
Fusion event
HIV-NIPBL 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
chr5
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
36892982/36892880 (Hg38)
End
36892982/36892880 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
NIPBL
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-421 ; hsa-mir-21-5p ; hsa-let-7b-5p ; hsa-mir-18a-3p ; hsa-mir-30b-5p ; hsa-mir-183-5p ; hsa-let-7a-5p ; hsa-mir-136-5p ; hsa-mir-369-3p ; hsa-mir-4738-5p ; hsa-mir-3936 ; hsa-let-7c-3p ; hsa-mir-6842-3p ; hsa-mir-647 ; hsa-mir-6762-3p ; hsa-mir-4666b ; hsa-mir-604 ; hsa-mir-664a-3p ; hsa-mir-4760-3p
Nearest miRNA
hsa-mir-10397/Upstream/744892; hsa-mir-103a-1/Downstream/1664622;
Nearest TSS
ENST00000502646/Upstream/16090; ENST00000505998/Downstream/62088;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/15322, chr5-CpG: 28/Downstream/316090
Upstream sequence
actgttgtggggtggggggagtggggagggatagcattaggagatatacctaatgctaaatgacaagttaatgggtgcagcacaccaacatggcacatgt
Downstream sequence
atacatatgtaacaaacctgcacgttgtgcacgtgtaccctagaactttaaagtataataataataaaaaaGTAGCATGGTGGATTATAATCTTACTTGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate