Basic Information
VIS ID
TVIS30004162
Fusion event
HIV-NFX1 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
chr9
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
33355138/33355140 (Hg38)
End
33355138/33355140 (Hg38)
Orient
-
Location type
Intronic
Target gene
NFX1
miRNAs that regulate target gene
hsa-mir-541-5p ; hsa-mir-5698 ; hsa-mir-744-3p ; hsa-mir-8057 ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-143-5p ; hsa-mir-675-5p ; hsa-mir-4466 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-4284 ; hsa-mir-24-3p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-367-5p ; hsa-mir-1267
Nearest miRNA
hsa-mir-101-2/Upstream/246375; hsa-let-7a-1/Downstream/112729;
Nearest TSS
ENST00000422679/Upstream/12328; ENST00000463421/Downstream/10093;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/64135, chr9-CpG: 41/Downstream/92308
Upstream sequence
ATTGAATTGTCTTAAGGATAAACCACTCAGGTGATTTCAGCATATTGAGAAACATGAGCTGTGTGGTTTTGGGCATGATATAAACATCACATAACACAGC
Downstream sequence
ATACTTATTCAGGGACTGGCCAACTTCCTGACTCAGAGATAAGAGGTTTAAAACAATGTTTAGTTaacttttcgttgaagtttagcatacatattgaaga
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate