Basic Information
VIS ID
TVIS30012496
Fusion event
HIV-CSNK1G2 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
p13.3
Reference genome
GRCh37/hg19
Start
1973761/1973762 (Hg38)
End
1973761/1973762 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
CSNK1G2
miRNAs that regulate target gene
hsa-mir-107 ; hsa-mir-30a-5p ; hsa-mir-155-5p ; hsa-mir-432-5p ; hsa-mir-569 ; hsa-mir-3121-3p ; hsa-mir-6515-5p ; hsa-mir-6825-5p ; hsa-mir-7106-5p ; hsa-mir-4443 ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-7154-3p ; hsa-mir-6503-3p ; hsa-mir-4305 ; hsa-mir-4759 ; hsa-mir-6768-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-627-3p ; hsa-mir-877-3p
Nearest miRNA
hsa-mir-1302-11/Upstream/157524; hsa-let-7e/Downstream/260300;
Nearest TSS
ENST00000633603/Upstream/3936; ENST00000591002/Downstream/4691;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/3625, chr19-CpG: 26/Downstream/1458
Upstream sequence
tttctgcagcctccaaccccagaagtccatgtggtgaatctttgattgcttagtggcatttttcggtttcgtctgattgtccattcgctctcagctgaga
Downstream sequence
tttcccatgtgcacattcactttggccatcttttcctttaaatctttgaacatgtttgtGCTGTTtcttagtccattttgtgctgctgtaacagaatgcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate