Basic Information
VIS ID
TVIS30002106
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
118787544/118349739 (Hg38)
End
118787544/118349739 (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/1921421; hsa-mir-1178/Downstream/1363895;
Nearest TSS
ENST00000382841/Upstream/93680; ENST00000360286/Downstream/9366;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/212813, chr12-CpG: 127/Downstream/21780
Upstream sequence
tggtgtaatgaaaatgttctagagttagatagtggtgaggttagatattgtaacaacatcacaaatatactaaaaacctgaatttcataatttaaaaagg
Downstream sequence
taagttttatatcataaaattttatctaaatTAAAAAAAACACAAAAAACAGTTATTAGTTTCATGCCCCAAATGACAGCTTCAATTtgtggtataaagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate