Basic Information
VIS ID
TVIS30006713
Fusion event
HIV-JPT2 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1739072/1689071 (Hg38)
End
1739072/1689071 (Hg38)
Orient
+
Location type
Intronic
Target gene
JPT2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-9-5p ; hsa-mir-124-3p ; hsa-mir-877-3p ; hsa-mir-125b-2-3p ; hsa-mir-186-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-188-3p ; hsa-mir-195-5p ; hsa-mir-3138 ; hsa-mir-424-5p ; hsa-mir-4519 ; hsa-mir-4520-3p ; hsa-mir-4691-5p ; hsa-mir-497-5p ; hsa-mir-5193 ; hsa-mir-6791-3p ; hsa-mir-6792-3p ; hsa-mir-6829-3p ; hsa-mir-6838-5p
Nearest miRNA
hsa-mir-3176/Upstream/918794; hsa-mir-11401/Downstream/45914;
Nearest TSS
ENST00000527434/Upstream/3571; ENST00000561765/Downstream/17112;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/10230, chr16-CpG: 104/Downstream/16752
Upstream sequence
TTCCAAAAAATTCAGGAGTGTGGTAACCTTGGGTGAGAGTgaaggaacacaggagtttctgggaacgggcactgttctcgatgactttggcagtggttac
Downstream sequence
ctggtgtctgccttgtagttatttgtgatagttaatgtcttacagacttttctgttatgtttcacagtttaaCTATTTTTTAAAAATGAGTGATGTCTTT
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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