Basic Information
VIS ID
TVIS30010633
Fusion event
HIV-BRSK1 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
chr19
Cytoband
q13.42
Reference genome
GRCh37/hg19
Start
55802028/55290660 (Hg38)
End
55802028/55290660 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
BRSK1
miRNAs that regulate target gene
hsa-mir-339-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-1538 ; hsa-mir-4745-3p ; hsa-mir-765 ; hsa-mir-6077 ; hsa-mir-423-5p ; hsa-mir-3184-5p ; hsa-mir-1247-3p ; hsa-mir-6753-5p ; hsa-mir-4779 ; hsa-mir-129-5p ; hsa-mir-4632-3p
Nearest miRNA
hsa-let-7e/Upstream/45410; hsa-mir-10394/Downstream/97521;
Nearest TSS
ENST00000633603/Upstream/6239; ENST00000591774/Downstream/11406;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/3377, chr19-CpG: 17/Downstream/12039
Nearest cancer related gene
BRSK1(TSG, No orient, 0)
Upstream sequence
aagtcttgtgaaaagcaaaagatttttcattttgataaattccagtttgttgatttttttattttacacctcatgctttttctttttctttttttttttg
Downstream sequence
agacggagtcttgctctgtcacccaggctggagtgcagtggcgcgatctcggctcactgcaagctccgcctcccgggttcacgccattctcctgcctcag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate