Basic Information
VIS ID
TVIS30011789
Fusion event
HIV-MED13L 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
chr12
Cytoband
q24.21
Reference genome
GRCh37/hg19
Start
116520208/116082403 (Hg38)
End
116520208/116082403 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E ; FRA12C
Target gene
MED13L
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-98-5p ; hsa-mir-93-5p ; hsa-mir-615-3p ; hsa-mir-18a-3p ; hsa-mir-328-3p ; hsa-mir-23b-3p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-676-5p ; hsa-mir-582-3p
Nearest miRNA
hsa-let-7i/Upstream/2790795; hsa-mir-1178/Downstream/66157;
Nearest TSS
ENST00000382841/Upstream/73258; ENST00000548506/Downstream/194356;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/165021, chr12-CpG: 196/Downstream/194247
Upstream sequence
AGGAACAGGTGAGGAGCAAGCAAAGTAAAAAGCAAATGAGTAAATATGTCTCTACATGTGTTGAATCATGTCCATCCAAATGAGAAAAAATATATAGAAG
Downstream sequence
TGTTGGTGGTTTGTAAGGAACTTGCTTCTTTCCTCACCTGATAACTGACTCTGGATCCACTTCTGCCTGGGTTGCTTTTCACCTAGGCTGCCTCCGTTAT
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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