Basic Information
VIS ID
TVIS30010841
Fusion event
HIV-ZNF518B 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
p16.1
Reference genome
GRCh37/hg19
Start
10446444/10444820 (Hg38)
End
10446444/10444820 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA4A
Target gene
ZNF518B
miRNAs that regulate target gene
hsa-mir-6875-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4279 ; hsa-mir-7111-3p ; hsa-mir-6794-3p ; hsa-mir-627-3p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-6845-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-483-3p ; hsa-mir-3613-3p ; hsa-mir-140-3p ; hsa-mir-497-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-4764-5p ; hsa-mir-8064 ; hsa-mir-4698 ; hsa-mir-4694-3p
Nearest miRNA
hsa-mir-3138/Upstream/366128; hsa-mir-12113/Downstream/924007;
Nearest TSS
ENST00000502981/Upstream/327871; ENST00000505494/Downstream/12356;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/299113, chr4-CpG: 161/Downstream/11685
Upstream sequence
GGTTGCAGGTGATGCAGCAAATGGGAGTAACTGCTGTGAGCTACTGTGTAAATTTCTTCCACTTTCAGCAAAACAAACAGCAGCTTTATATGGAAAAGGG
Downstream sequence
TTTGATGCAGCTCCAAGACTACGTAAAACACTGTTTTTAAATACAGATGCTAGAGAATGACCTTTTAAGGCAACGGAAGGAAAAGCAGTTCTATGTGGAT
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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