Basic Information
VIS ID
TVIS30008588
Fusion event
HIV-UBA6 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
chr4
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
68482663/67616945 (Hg38)
End
68482663/67616945 (Hg38)
Orient
-
Location type
UTR3
Target gene
UBA6
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-615-3p ; hsa-mir-125b-5p ; hsa-mir-31-5p ; hsa-let-7a-5p ; hsa-mir-4502 ; hsa-mir-187-5p ; hsa-mir-8069 ; hsa-mir-3682-3p ; hsa-mir-5690 ; hsa-mir-1272 ; hsa-mir-3617-3p ; hsa-mir-3679-3p ; hsa-mir-6826-3p ; hsa-mir-5591-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-153-5p ; hsa-mir-660-5p ; hsa-mir-5092 ; hsa-mir-129-5p ; hsa-mir-2355-3p ; hsa-mir-4646-3p ; hsa-mir-676-3p ; hsa-mir-6868-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6509-5p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-501-5p ; hsa-mir-548ao-3p ; hsa-mir-3667-5p
Nearest miRNA
hsa-mir-12113/Upstream/1340017; hsa-mir-1243/Downstream/8956623;
Nearest TSS
ENST00000502981/Upstream/58217; ENST00000514109/Downstream/8210;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/71288, chr4-CpG: 45/Downstream/83940
Upstream sequence
CATTGAAACTGTACAAAAATCAAATCATTAATTTTTGCACCTGGTATTTCAGTCATCAACAGCAATCTCATGGTACAGAAATAAAATAATGGGAATTATC
Downstream sequence
ATTAACTTCACCCTGGCTTTCTAGCTTAGTAGAACCAAACAGAAGAAATCATGGCAATAACCATTAACTATAGAAAAAAAGTAATGGAAAAATGGTTGCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate