Basic Information
VIS ID
TVIS30009840
Fusion event
HIV-NUP214 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
q34.13
Reference genome
GRCh37/hg19
Start
134068263/131192876 (Hg38)
End
134068263/131192876 (Hg38)
Orient
+
Location type
Intronic
Target gene
NUP214
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-193b-3p ; hsa-mir-331-3p ; hsa-mir-328-3p ; hsa-mir-149-5p ; hsa-mir-15b-5p ; hsa-mir-22-3p ; hsa-mir-20a-5p ; hsa-mir-218-5p ; hsa-mir-6515-3p ; hsa-mir-520f-5p ; hsa-mir-216b-5p ; hsa-mir-618 ; hsa-mir-548c-3p ; hsa-mir-1236-3p ; hsa-mir-6847-3p ; hsa-mir-767-3p ; hsa-mir-133b
Nearest miRNA
hsa-let-7a-1/Upstream/566513; hsa-mir-126/Downstream/1752831;
Nearest TSS
ENST00000422679/Upstream/752; ENST00000529286/Downstream/1329;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/66957, chr9-CpG: 17/Downstream/67949
Nearest cancer related gene
NUP214(OG, No orient, 0)
Upstream sequence
caaaaaattgaaaaattaaccaggtacgttggttcacttctatagtcccagccacttgggaggctgaggtgggaggatcccttgagcccgggagttcgag
Downstream sequence
gttacagtgagctatgatcacaccattgtactccagcctgggcaacagagtgaaaccccgtctccaaaaaaaaaaaaaaaaaaaaaaaaaaaGGCTTACT
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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