Basic Information
VIS ID
TVIS30007454
Fusion event
HIV-SLC25A42 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
p13.11
Reference genome
GRCh37/hg19
Start
19219308/19108499 (Hg38)
End
19219308/19108499 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
SLC25A42
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-4433b-5p ; hsa-mir-1260b ; hsa-mir-1260a ; hsa-mir-532-3p ; hsa-mir-1224-3p ; hsa-mir-96-3p ; hsa-mir-2681-3p ; hsa-mir-5684 ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-6750-3p ; hsa-mir-551b-5p
Nearest miRNA
hsa-mir-10395/Upstream/721865; hsa-let-7e/Downstream/326564;
Nearest TSS
ENST00000633603/Upstream/2636; ENST00000421262/Downstream/12476;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/44313, chr19-CpG: 52/Downstream/1888
Upstream sequence
aaaattaggcatggtggcacacacctgtggtcccagctactagagaggctgcggtgggaggatcacccaagcctgggaggtcaaggccgcagtgagctgt
Downstream sequence
gatctcactgctgcacaccagcctgggtgtcaaagtgagaccctgtctcaagaaaaaaaaaaaaaGTGACTCTGGGAAGCCCAGTGTGTCACCTAGAGCA
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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