Basic Information
VIS ID
TVIS30011630
Fusion event
HIV-NPAT 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
q22.3
Reference genome
GRCh37/hg19
Start
108061776/108191049 (Hg38)
End
108061776/108191049 (Hg38)
Orient
-
Location type
Intronic
Target gene
NPAT
miRNAs that regulate target gene
hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-3180-5p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-4772-5p ; hsa-mir-383-5p ; hsa-mir-4765 ; hsa-mir-759 ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-5586-3p ; hsa-mir-3925-5p ; hsa-mir-4773 ; hsa-mir-4797-5p ; hsa-mir-595 ; hsa-mir-4796-3p ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-106a-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p
Nearest miRNA
hsa-mir-10392/Upstream/4341069; hsa-let-7a-2/Downstream/3156708;
Nearest TSS
ENST00000527297/Upstream/20848; ENST00000532931/Downstream/31435;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/69045, chr11-CpG: 75/Downstream/31435
Upstream sequence
tcctaggtacttgggaggctgaggtgggagaaacttttgagctcaggcgttcaaggctacaagagctatgatcacaccaccgcattccagcttgggtaac
Downstream sequence
agagtgagaccctacctcttaaaaaaaTGAACAGAAGATAATTTAACTTTAGAAACTCTACATATTAACATTTTTGAGTAAGAATATACAAAGTATACAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate