Basic Information
VIS ID
TVIS30002907
Fusion event
HIV-VPS4B 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
chr18
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
61072391/63405158 (Hg38)
End
61072391/63405158 (Hg38)
Orient
-
Location type
Intronic
Target gene
VPS4B
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-128-3p ; hsa-mir-124-3p ; hsa-mir-32-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-125b-5p ; hsa-mir-526b-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-5186 ; hsa-mir-6730-5p ; hsa-mir-5681a ; hsa-mir-877-3p ; hsa-mir-935 ; hsa-mir-5094 ; hsa-mir-548m ; hsa-mir-367-3p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-mir-363-3p ; hsa-mir-92b-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-488-3p
Nearest miRNA
hsa-mir-1-2/Upstream/4954000; hsa-mir-5011/Downstream/3676426;
Nearest TSS
ENST00000575820/Upstream/444; ENST00000424602/Downstream/17232;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/37335, chr18-CpG: 84/Downstream/16871
Upstream sequence
CTATAAATTTTAAAAATGTGTCATGATTTGTTTTCATATATAATACTTCTAAGTTAAAAGGTGACTTTGGAATGTTTACTGATAAACAATCTCATACTAG
Downstream sequence
ACATGGTTTGCAAAATTAAAAAGGGGGGATGGGATTATGAAAAATGCTAACAAATGGAATGTACTTCCAATGATATAAATTTATCCGGTCTTTGACTATA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate