Basic Information
VIS ID
TVIS30006265
Fusion event
HIV-TAOK3 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
chr12
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
118709742/118271937 (Hg38)
End
118709742/118271937 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E ; FRA12C
Target gene
TAOK3
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-335-3p ; hsa-mir-548aw ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-548ax ; hsa-mir-548ao-5p ; hsa-mir-129-5p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-6780a-3p
Nearest miRNA
hsa-let-7i/Upstream/1843619; hsa-mir-1178/Downstream/1441697;
Nearest TSS
ENST00000382841/Upstream/15878; ENST00000360286/Downstream/87168;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/135011, chr12-CpG: 127/Downstream/99582
Upstream sequence
TTTCTTCTAAGAGGATAAGATGAAATAACAGGCATAAAATAAGTTTTTCCCTCTTCCTTAACCTCCTGCAACCTCAGGTATTACATTTATAGTGAGAATG
Downstream sequence
TAGAACTGCGCCAAGAATGTAGTATTTCAGGTTTTAGGCCCTTGGGCCAAATAAACAATCCAACTAGCACGGAGTAGAAGATTTCATCAGAGATGTGCAA
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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