Basic Information
VIS ID
TVIS30008856
Fusion event
HIV-TNFAIP8 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
chr5
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
118628480/119292785 (Hg38)
End
118628480/119292785 (Hg38)
Orient
+
Location type
Intronic
Target gene
TNFAIP8
miRNAs that regulate target gene
hsa-mir-452-5p ; hsa-mir-574-5p ; hsa-mir-23c ; hsa-mir-23b-3p ; hsa-mir-23a-3p ; hsa-mir-130a-5p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-630 ; hsa-mir-4717-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-6769b-5p ; hsa-mir-6769a-5p ; hsa-mir-92a-2-5p ; hsa-mir-654-5p ; hsa-mir-541-3p ; hsa-mir-6787-3p ; hsa-mir-6884-3p ; hsa-mir-3614-3p ; hsa-mir-9-5p ; hsa-mir-193b-5p ; hsa-mir-483-5p
Nearest miRNA
hsa-mir-10397/Upstream/138069; hsa-mir-103a-1/Downstream/9804903;
Nearest TSS
ENST00000502646/Upstream/24031; ENST00000504642/Downstream/40390;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/23646, chr5-CpG: 42/Downstream/62921
Upstream sequence
acacacacacacaatgaaatactatttagcaataaaaaagaacaaagtactgtacctgctacagcatgggtgaatctcaaaaacattgtgccaggtaaga
Downstream sequence
taaaccagatgcaaaaggctacatactgtgtggttctgttcatgtgaaatgcctggaaaaggcgaatctgtaaacagcaagtgattagtggctgcctgag
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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