Basic Information
VIS ID
TVIS30007433
Fusion event
HIV-ZSWIM4 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
p13.12
Reference genome
GRCh37/hg19
Start
13921388/13810574 (Hg38)
End
13921388/13810574 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
ZSWIM4
miRNAs that regulate target gene
hsa-mir-885-3p ; hsa-mir-3665 ; hsa-mir-3616-3p ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-125a-3p ; hsa-mir-6879-5p ; hsa-mir-7843-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-6510-5p ; hsa-mir-4690-5p ; hsa-mir-6165 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-5197-3p ; hsa-mir-1299 ; hsa-mir-3978 ; hsa-mir-4722-3p ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-5706 ; hsa-mir-6128 ; hsa-mir-6507-3p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-6778-3p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-6836-3p ; hsa-mir-6838-3p ; hsa-mir-7977 ; hsa-mir-875-3p
Nearest miRNA
hsa-mir-10395/Upstream/870034; hsa-let-7e/Downstream/25713;
Nearest TSS
ENST00000633603/Upstream/5513; ENST00000592227/Downstream/7125;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1312, chr19-CpG: 65/Downstream/19676
Upstream sequence
tagagacggagtttcaccatgttgatcaggctggtctcgaactcctgtcttcgtgatccacccgcctcagcctcccaaagtgctgggattacaggcgtga
Downstream sequence
gccaccacacccagccAACATATGttttcttttttcttttttcttttttttttgagacggagtcttgctctgtcacccaagctggagtgcagtggcacaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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