Basic Information
VIS ID
TVIS30008435
Fusion event
HIV-CPNE4 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
chr3
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
131709436/131990592 (Hg38)
End
131709436/131990592 (Hg38)
Orient
+
Location type
Intronic
Target gene
CPNE4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-122-5p
Nearest miRNA
hsa-let-7g/Upstream/4661; hsa-mir-1224/Downstream/2377212;
Nearest TSS
ENST00000440867/Upstream/65011; ENST00000483689/Downstream/27163;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/463415, chr3-CpG: 25/Downstream/44444
Upstream sequence
CAATAACAATTATATTGTATGAAGCATTTCAAGTACATATTCAATAAAATACGTAAGACAAATGTTATATGACTTGACAACATAATACGTATAGAATAAA
Downstream sequence
ATATGAAAAGACTTGGATTATTTTCATTTTCTTGATCTTTTACAATAAAATAAATACCTGATTTGGAACTGTATACTTCAAAAATTTATTGGAATAATCG
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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