Basic Information
VIS ID
TVIS30001697
Fusion event
HIV-ATP2B4 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
chr1
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
203625921/203656793 (Hg38)
End
203625921/203656793 (Hg38)
Orient
+
Location type
Intronic
Target gene
ATP2B4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-21-5p ; hsa-mir-423-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-190a-3p ; hsa-mir-218-5p ; hsa-mir-6806-5p ; hsa-mir-4290 ; hsa-mir-488-5p ; hsa-mir-4747-3p ; hsa-mir-6083 ; hsa-mir-642a-5p ; hsa-mir-452-3p ; hsa-mir-7106-3p ; hsa-mir-6886-3p ; hsa-mir-938 ; hsa-mir-18a-3p ; hsa-mir-7113-3p ; hsa-mir-6734-3p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-6752-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1653557; hsa-mir-1182/Downstream/1791509;
Nearest TSS
ENST00000473358/Upstream/30006; ENST00000466407/Downstream/26016;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/27068, chr1-CpG: 57/Downstream/138647
Upstream sequence
TTCAGGAAATTGCTGAATACCCACGCATAAATGCAGATATTGATGAAGTAGGATATTTGTATATTTGCTTTTTTTCAATCATTCAATTTTATGAACATGG
Downstream sequence
GGTCTAAGCAGATTTCAAAACAAAGACCATTTATAAAACTGGACCATTTTAATGTTTACAATGTAATAAATCTCTTGATTGCAGACATATATGGCTGTTT
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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