Basic Information
VIS ID
TVIS30003392
Fusion event
HIV-APOL1 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
chr22
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
36656102/36260056 (Hg38)
End
36656102/36260056 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
APOL1
miRNAs that regulate target gene
hsa-mir-4279 ; hsa-mir-4284 ; hsa-mir-2276-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-4726-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6840-3p ; hsa-mir-6890-3p ; hsa-mir-1306-5p ; hsa-mir-122-3p
Nearest miRNA
hsa-mir-1286/Upstream/923257; hsa-let-7a-3/Downstream/26791;
Nearest TSS
ENST00000624155/Upstream/6892; ENST00000424761/Downstream/25965;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/193693, chr22-CpG: 24/Downstream/62349
Upstream sequence
TCAAAACATAAGGAGTTTTAATGTTAAGGAGTTTAAGGAGAATgtcaaagaaacattggccttggagtcaaatcctgagcttcctgcttgatggttttgg
Downstream sequence
gcggtgactctcgctgtctggattttactttcttcatctgtgaattaagaatgaGGTggccgggcactgtggctcacgcctgtaatcccaacatttggga
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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