Basic Information
VIS ID
TVIS30003342
Fusion event
HIV-PRPF6 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
chr20
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
62624692/63993339 (Hg38)
End
62624692/63993339 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRPF6
miRNAs that regulate target gene
hsa-mir-1226-3p ; hsa-mir-149-5p ; hsa-mir-23b-3p ; hsa-mir-7977 ; hsa-mir-675-5p ; hsa-mir-4466 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-4746-3p ; hsa-mir-4798-3p ; hsa-mir-6750-3p ; hsa-mir-383-3p
Nearest miRNA
hsa-mir-1-1/Upstream/50613; hsa-mir-6813/Downstream/83616;
Nearest TSS
ENST00000382410/Upstream/12204; ENST00000444463/Downstream/41005;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/11905, chr20-CpG: 28/Downstream/36269
Upstream sequence
gtgtgtgtgtgtgtgtgtgtgtgtatatgtATATATATATATATATATTTGATTTAGCTACTAAGAGTATGGAATTGTTCTTTTTGGTGATTTAATTGAG
Downstream sequence
ATGGATAATAAATTTGCTTCAGAACAGACATGCAGTGTTTCTGATGTGTGCATGTTTTATTTCCTAGGGAGCAAAGGGAGAAAGAAGAAATAGAGAAATA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate