Basic Information
VIS ID
TVIS30008510
Fusion event
HIV-CLDN1 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
q28
Reference genome
GRCh37/hg19
Start
190025610/190307821 (Hg38)
End
190025610/190307821 (Hg38)
Orient
+
Location type
UTR3
Target gene
CLDN1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-29b-3p ; hsa-mir-5100 ; hsa-mir-3942-3p ; hsa-mir-10b-3p ; hsa-mir-338-5p ; hsa-mir-3117-5p ; hsa-mir-376c-3p ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-6858-5p ; hsa-mir-4689 ; hsa-mir-1224-5p ; hsa-mir-3915 ; hsa-mir-337-3p ; hsa-mir-642a-5p ; hsa-mir-6124 ; hsa-mir-3148 ; hsa-mir-3928-3p ; hsa-mir-4667-3p ; hsa-mir-4461 ; hsa-mir-1470 ; hsa-mir-3688-3p ; hsa-mir-141-5p ; hsa-mir-548c-3p ; hsa-mir-653-3p ; hsa-mir-4286 ; hsa-mir-1304-3p ; hsa-mir-5003-5p ; hsa-mir-1285-5p ; hsa-mir-1243 ; hsa-mir-142-5p ; hsa-mir-29a-3p
Nearest miRNA
hsa-let-7g/Upstream/477812; hsa-mir-3137/Downstream/4826685;
Nearest TSS
ENST00000440867/Upstream/185384; ENST00000468220/Downstream/5397;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/186731, chr3-CpG: 60/Downstream/14207
Nearest cancer related gene
CLDN1(TSG, No orient, 0)
Upstream sequence
GAATTGAAAGAATTCATCCTTGGTAAATTAGGCTAGGTCTTGTGGCAAAGGCACCCAAAGCTAATGAAGAAGAGTAAATGATATTTGACTGTTACATATG
Downstream sequence
TATATATAGACGAAAAAGAAAATATACCAATAAACATCTTCATCAATATGGAATTAAATACATTTACCTATTTTAGAGATATTTTAAGTATGCTAGTATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate