Basic Information
VIS ID
TVIS30007306
Fusion event
HIV-RIOK3 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
chr18
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
21059184/23479220 (Hg38)
End
21059184/23479220 (Hg38)
Orient
-
Location type
Intronic
Target gene
RIOK3
miRNAs that regulate target gene
hsa-mir-10a-5p ; hsa-mir-16-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-140-5p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-4683 ; hsa-mir-1273f ; hsa-mir-4254 ; hsa-mir-3690 ; hsa-mir-6839-3p ; hsa-mir-4507 ; hsa-mir-3940-5p ; hsa-mir-629-5p
Nearest miRNA
hsa-mir-1-2/Upstream/545782; hsa-mir-122/Downstream/842455;
Nearest TSS
ENST00000575820/Upstream/213; ENST00000587153/Downstream/24250;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/25566, chr18-CpG: 103/Downstream/23977
Upstream sequence
GTAATTTTTACTCTCTTAAAAACTAGGTTATTCCTAATGATTCTGCCTTTGAGTTGAAATTACtgtgtgtgtgtgtgtgtgcgtgtgCACACGTGCATGC
Downstream sequence
ATCCAAGTCTTTTTATAAATGTGCTGCTCCCTGTTTTTAGTTTATAAGAGAACATTGCTAATACTTCTTACTGACTTTCTTGTATTTCCTTACTAGTTTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate