Basic Information
VIS ID
TVIS30002885
Fusion event
HIV-VAPA 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
p11.22
Reference genome
GRCh37/hg19
Start
9946247/9946250 (Hg38)
End
9946247/9946250 (Hg38)
Orient
-
Location type
Intronic
Target gene
VAPA
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-101-3p ; hsa-mir-126-5p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-1276 ; hsa-mir-6873-3p ; hsa-mir-6794-3p ; hsa-mir-377-3p ; hsa-mir-4795-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-342-3p ; hsa-mir-4639-3p ; hsa-mir-3680-5p ; hsa-mir-8485 ; hsa-mir-6750-3p ; hsa-mir-30e-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-129-5p ; hsa-mir-7850-5p
Nearest miRNA
hsa-mir-3976/Upstream/3571825; hsa-mir-1-2/Downstream/813334;
Nearest TSS
ENST00000575820/Upstream/9523; ENST00000577539/Downstream/1344;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/31083, chr18-CpG: 39/Downstream/86211
Upstream sequence
TAAAAAAGAATACAGAAGTAcagtcatgcatctgttaaggatggggatatatattgagaaatgtgttgttaggtgatgtgttgtataaacatcatagagt
Downstream sequence
gtacttacaaaaacctatatatggtattgccttttgctcctaggctacagacttgtatagcctgtggctgtactacaatggtaagtatttgtgtatcgaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate