Basic Information
VIS ID
TVIS30011858
Fusion event
HIV-CDC16 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
chr13
Cytoband
q34
Reference genome
GRCh37/hg19
Start
115011406/114245931 (Hg38)
End
115011406/114245931 (Hg38)
Orient
+
Location type
Intronic
Target gene
CDC16
miRNAs that regulate target gene
hsa-mir-93-5p
Nearest miRNA
hsa-mir-1267/Upstream/1370; hsa-mir-4502/Downstream/27897;
Nearest TSS
ENST00000623511/Upstream/188; ENST00000461716/Downstream/18281;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/10532, chr13-CpG: 135/Downstream/35348
Upstream sequence
CATCTAACTCTCCAGTTAGAGAGTTAATTTTTTATCTAGAAGGAAAGACAAGTATGAAATCATTGCTGTAAGAGCAGAATTATATGATTGTGAAGAGTTG
Downstream sequence
TAATGAAATCATGTCTTAAATTACATGTGATACGAACAATTGTTCTTTTTCTGCTTTTTCCTGAACAGAACTTTTCTATCTTTCTCATAAACTGGTGGAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate