Basic Information
VIS ID
TVIS30012595
Fusion event
HIV-ZNF546 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
q13.2
Reference genome
GRCh37/hg19
Start
40504664/39998757 (Hg38)
End
40504664/39998757 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZNF546
miRNAs that regulate target gene
hsa-mir-4776-3p ; hsa-mir-192-3p ; hsa-mir-2467-3p ; hsa-mir-4257 ; hsa-mir-449c-5p ; hsa-mir-34b-5p ; hsa-mir-2682-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-744-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-1827 ; hsa-mir-1304-3p ; hsa-mir-4781-3p ; hsa-mir-1182 ; hsa-mir-4727-5p ; hsa-mir-4252 ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-4772-3p ; hsa-mir-6890-3p ; hsa-mir-6787-3p ; hsa-mir-7977 ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-4666a-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-7849-3p
Nearest miRNA
hsa-mir-10395/Upstream/168955; hsa-let-7e/Downstream/283786;
Nearest TSS
ENST00000633603/Upstream/1521; ENST00000598952/Downstream/57349;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1370, chr19-CpG: 31/Downstream/57156
Upstream sequence
GGATTTTTTTCCAAGGAATCCATGAGTTGAGATTTATTTTTATACAGAGTTAGTCATAAGAATAAAAAGTACATATGAGTAAAGTAATAGTCATAGTGAT
Downstream sequence
GAAGAATAATACGCAAtttttttttctttttttgagaaggagtctcgctgtgtcacccaggctggagtgcaatggcatgaactcggcttactgcagcctc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate