Basic Information
VIS ID
TVIS30007990
Fusion event
HIV-RPN2 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
chr20
Cytoband
q11.23
Reference genome
GRCh37/hg19
Start
35842163/37213760 (Hg38)
End
35842163/37213760 (Hg38)
Orient
+
Location type
Exonic
Target gene
RPN2
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-615-3p ; hsa-mir-484 ; hsa-mir-23b-3p ; hsa-mir-30d-5p ; hsa-mir-30a-5p ; hsa-let-7e-5p ; hsa-mir-6739-3p ; hsa-mir-4677-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-526b-5p ; hsa-mir-4693-5p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-1257 ; hsa-mir-219b-3p ; hsa-mir-1-5p ; hsa-mir-892a ; hsa-mir-4318 ; hsa-mir-219a-2-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/1759663; hsa-mir-1-1/Downstream/1302803;
Nearest TSS
ENST00000382410/Upstream/34172; ENST00000470352/Downstream/14874;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/34120, chr20-CpG: 34/Downstream/75825
Upstream sequence
GCCTTGGACAGTCTCCAGGAGACATTTTGTAGCTCCTGTTTGTTATATCCATGACTTTCCTACCTGAGTTCTTGCTAAGCCCATTGTCATTCTTAACAGG
Downstream sequence
GATGTTTTTGAACTAAATTTCATGAACGTCAAATTTTCCAGTGGTTATTATGACTTCCTTGTCGAAGTTGAAGGTGACAACCGGTATATTGCAAATACCG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate