Basic Information
VIS ID
TVIS30010240
Fusion event
HIV-YBX3 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
p13.2
Reference genome
GRCh37/hg19
Start
10866858/10714259 (Hg38)
End
10866858/10714259 (Hg38)
Orient
+
Location type
Intronic
Target gene
YBX3
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-124-3p ; hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-652-3p ; hsa-mir-193b-3p ; hsa-mir-100-5p ; hsa-mir-92a-3p ; hsa-mir-18a-5p ; hsa-mir-191-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/1474708; hsa-let-7i/Downstream/1397693;
Nearest TSS
ENST00000382841/Upstream/3545; ENST00000541949/Downstream/1889;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/40072, chr12-CpG: 114/Downstream/8279
Upstream sequence
GATCACACCGGTAAAGATAATCACTTAAATTTCTGCATCCAATGAAAtaaattgtttttcttttaaaacacaatggtttgagagccattaggaacatgac
Downstream sequence
ctatggaatggtatatgtgtatatgggaggagcacatacagggagttaacctctcatccagttaatttataattcagctgccatgattagctgccatggc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate