Basic Information
VIS ID
TVIS30004782
Fusion event
HIV-VPS54 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
chr2
Cytoband
p14
Reference genome
GRCh37/hg19
Start
64201397/63974263 (Hg38)
End
64201397/63974263 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
VPS54
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-26b-5p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-1301/Upstream/1768346; hsa-mir-10b/Downstream/366484;
Nearest TSS
ENST00000437798/Upstream/54333; ENST00000438115/Downstream/1339;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/132491, chr2-CpG: 74/Downstream/44537
Upstream sequence
ggtatgtggatgtatagttgtttcagtaccatttgttcaaacaactatcctttctctactgaattacctttgcccctttgttaaaaatcagttgattgta
Downstream sequence
tttgtgtgggtctatttctgggttctctgttccactgacccatatgtctgttctttcaccaatatgacattgtcttgattactgtagctttatagcaaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate