Basic Information
VIS ID
TVIS30005552
Fusion event
HIV-CDC123 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
chr10
Cytoband
p13
Reference genome
GRCh37/hg19
Start
12264790/12222791 (Hg38)
End
12264790/12222791 (Hg38)
Orient
-
Location type
Intronic
Target gene
CDC123
miRNAs that regulate target gene
hsa-mir-361-5p ; hsa-mir-101-3p ; hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-1227-3p ; hsa-mir-877-3p ; hsa-mir-671-5p ; hsa-mir-324-5p
Nearest miRNA
hsa-mir-3155a/Upstream/91975; hsa-mir-107/Downstream/355962;
Nearest TSS
ENST00000439456/Upstream/5377; ENST00000497963/Downstream/8157;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/26413, chr10-CpG: 202/Downstream/126012
Upstream sequence
CTCATGATGAAGGAGAAATACATTTGACTGCAGGTCAGGGAATTTGATTTGTCTTAGTAAtttttttttaaaattttttcaagatagagtctcactctgt
Downstream sequence
cacccaggctgaaatgcaatgatgcgatcttggctcactgcaccctctgcctcccACAGTCCCAGACCGACATGCTCATCACTGGATATGTTACATTTGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate