Basic Information
VIS ID
TVIS30011653
Fusion event
HIV-PKNOX2 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
chr11
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
125159009/125289113 (Hg38)
End
125159009/125289113 (Hg38)
Orient
+
Location type
Intronic
Target gene
PKNOX2
miRNAs that regulate target gene
hsa-mir-1185-2-3p ; hsa-mir-4665-5p ; hsa-mir-4472 ; hsa-mir-1275 ; hsa-mir-4447 ; hsa-mir-92a-2-5p ; hsa-mir-5010-5p ; hsa-mir-4525 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-6825-5p ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-6883-5p ; hsa-mir-4728-5p ; hsa-mir-6785-5p ; hsa-mir-149-3p ; hsa-mir-671-5p ; hsa-mir-6783-5p ; hsa-mir-4323 ; hsa-mir-5192 ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-6829-3p ; hsa-mir-6823-3p ; hsa-mir-6791-3p ; hsa-mir-2114-3p ; hsa-mir-6734-3p ; hsa-mir-5193 ; hsa-mir-665
Nearest miRNA
hsa-let-7a-2/Upstream/1907601; hsa-mir-3167/Downstream/1699345;
Nearest TSS
ENST00000527297/Upstream/22315; ENST00000558705/Downstream/41146;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/122334, chr11-CpG: 100/Downstream/206128
Upstream sequence
TGTAACAACATAGCACAGTGCAAAGCACATAGCAGGTGCCTTTTACCATTTCATTGGCCTGAGACAGTCTCTCCTAGGTGCTGCGGTGTAGAGATCTCCA
Downstream sequence
GAGGATGGGCAGTGGCAGGAAATCCTCAGCCTTCAAGCGGAACCCATAGCAGACCGGGGCCCTGCTGACCAGGGGAAATCTCTTAGCTCCCAGGTGGGAG
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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