Basic Information
VIS ID
TVIS30007444
Fusion event
HIV-AKAP8 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
15487363/15376552 (Hg38)
End
15487363/15376552 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
AKAP8
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-218-5p ; hsa-let-7d-5p ; hsa-mir-92b-3p ; hsa-mir-579-3p ; hsa-mir-664b-3p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-5696 ; hsa-mir-190a-3p ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-205-3p ; hsa-mir-6504-3p ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-5683 ; hsa-mir-1303 ; hsa-mir-202-3p ; hsa-mir-98-5p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7a-5p ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-4719 ; hsa-mir-3925-5p ; hsa-mir-3123 ; hsa-mir-1252-3p
Nearest miRNA
hsa-mir-10395/Upstream/197202; hsa-let-7e/Downstream/72996;
Nearest TSS
ENST00000633603/Upstream/3401; ENST00000601005/Downstream/2609;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/3456, chr19-CpG: 133/Downstream/2493
Upstream sequence
agcctgggcaacagagcaagactctgtatcaaaagaaaaaaaaaTCATACTAATGAGATTTTTAGTACACTCACTACAGGTGTAGTGTACACTCAGTACA
Downstream sequence
CCTGAGTGGAGGTGGGTGGGCGTATGAAACTCCACTACTCAATCTAAAGCTGTACTAAAAAGTCTGGTAATTATAGAGAAAAAACACCTCGGATATACCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate