Basic Information
VIS ID
TVIS30012889
Fusion event
HIV-TSHZ2 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
q13.2
Reference genome
GRCh37/hg19
Start
51774307/53157768 (Hg38)
End
51774307/53157768 (Hg38)
Orient
+
Location type
Intronic
Target gene
TSHZ2
miRNAs that regulate target gene
hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-891a-3p ; hsa-mir-143-5p ; hsa-mir-5698 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-593-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-767-5p ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-6787-3p ; hsa-mir-5693 ; hsa-mir-6736-3p ; hsa-mir-6830-3p ; hsa-mir-6809-3p ; hsa-mir-6875-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4775 ; hsa-mir-6873-3p ; hsa-mir-6845-3p ; hsa-mir-942-5p ; hsa-mir-590-3p ; hsa-mir-744-3p ; hsa-mir-4772-3p ; hsa-mir-1281 ; hsa-mir-6890-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/1704791; hsa-mir-1-1/Downstream/910640;
Nearest TSS
ENST00000382410/Upstream/185361; ENST00000329613/Downstream/21782;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/184287, chr20-CpG: 26/Downstream/423751
Upstream sequence
ACTAGTGTTATGTATAGTAATGCATCTCAACATATTTACTCTATTTGATAATGAAACTGATTTACTTCTGCTTTTAGAGAGAGGGAGAGATGAATGGATG
Downstream sequence
GTTCCTTGAGTGTTCTTCATGTATTTatttatttattcaactcacatacattaaatacctactttatgtttcctaggcatttgggggtcgcaataaagag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate