Basic Information
VIS ID
TVIS30008572
Fusion event
HIV-N4BP2 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
p14
Reference genome
GRCh37/hg19
Start
40117645/40116025 (Hg38)
End
40117645/40116025 (Hg38)
Orient
+
Location type
Intronic
Target gene
N4BP2
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-100-5p ; hsa-mir-99a-5p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-200b-3p ; hsa-mir-30b-5p ; hsa-mir-200c-3p ; hsa-mir-30e-5p ; hsa-mir-429 ; hsa-mir-3607-3p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-1183 ; hsa-mir-8084 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-130b-5p
Nearest miRNA
hsa-mir-12113/Upstream/704051; hsa-mir-1243/Downstream/386015;
Nearest TSS
ENST00000502981/Upstream/13118; ENST00000514143/Downstream/75028;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/58761, chr4-CpG: 118/Downstream/321779
Upstream sequence
ttctccttataattctgcctatgtttgctttacatatttggagggtagtttttgaaatgtatacaagcttaagatttttatatcaccctaattaattgaa
Downstream sequence
ccttttattattttctagtgattttcttttgtctttagtagtgatttttgttgtaaagtgtaatttgtctaatattgatagacctacatcagcttccttt
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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