Basic Information
VIS ID
TVIS30003854
Fusion event
HIV-VPS52 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
chr6
Cytoband
p21.32
Reference genome
GRCh37/hg19
Start
33225469/33257692 (Hg38)
End
33225469/33257692 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
VPS52
miRNAs that regulate target gene
hsa-mir-4728-5p ; hsa-mir-607 ; hsa-mir-3591-5p ; hsa-mir-628-5p ; hsa-mir-3671 ; hsa-mir-6807-5p ; hsa-mir-124-5p ; hsa-mir-3175 ; hsa-mir-6731-5p ; hsa-mir-8085 ; hsa-mir-8077 ; hsa-mir-7160-5p ; hsa-mir-655-5p ; hsa-mir-4663 ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-4779 ; hsa-mir-4255 ; hsa-mir-7161-3p ; hsa-mir-302f ; hsa-mir-142-3p ; hsa-mir-513b-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-4252 ; hsa-mir-205-5p ; hsa-mir-4719 ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-330-3p ; hsa-mir-7109-3p ; hsa-mir-6771-3p ; hsa-mir-3065-3p ; hsa-mir-338-3p ; hsa-mir-3617-3p ; hsa-mir-383-3p ; hsa-mir-500b-3p ; hsa-mir-6884-3p ; hsa-mir-7156-3p
Nearest miRNA
hsa-mir-1236/Upstream/49748; hsa-mir-10398/Downstream/29535;
Nearest TSS
ENST00000381078/Upstream/7413; ENST00000474626/Downstream/5921;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/8006, chr6-CpG: 53/Downstream/13857
Upstream sequence
gtttcaccatgttggccaggatggtctcgatcccgtgacctcgtaatccacccgcctcagcctcccaaagtactgggattacaggcgtgagccaccacac
Downstream sequence
ccagcccaggaatttcttaaacaggacaaaaatagtcaggcgtggtagatggtggctgtaagcccagcactttgggaggctgatgcgggaggatcacttg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate