Basic Information
VIS ID
TVIS30008687
Fusion event
HIV-NEK1 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
chr4
Cytoband
q33
Reference genome
GRCh37/hg19
Start
170508769/169587618 (Hg38)
End
170508769/169587618 (Hg38)
Orient
+
Location type
Intronic
Target gene
NEK1
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-484 ; hsa-mir-302a-5p ; hsa-mir-6507-3p
Nearest miRNA
hsa-mir-12113/Upstream/4201281; hsa-mir-1305/Downstream/1598566;
Nearest TSS
ENST00000502981/Upstream/2119; ENST00000506924/Downstream/11525;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/315925, chr4-CpG: 55/Downstream/24629
Upstream sequence
TTAACATAACTTTGAAAGTATTTCAGAAACTTCTACTTACAGCATGTTTAAGTGTACACAGCTCATAAAGGACACACCCCAGAGCCCAAATGTCACTGGA
Downstream sequence
GAAGATAAAAATGAGAAATTTCCTCTAAGTATTTCAAATTTTTTCATTTAAAGGAAACACAAACAGCATAAAAGTGTTTTGGAAAAATATGTGCTCCAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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