Basic Information
VIS ID
TVIS30006632
Fusion event
HIV-PARP16 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
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
65553780/65261442 (Hg38)
End
65553780/65261442 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
PARP16
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-590-3p ; hsa-mir-193b-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-218-5p ; 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-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-5582-5p ; hsa-mir-6769a-3p ; hsa-mir-3943 ; hsa-mir-4323 ; hsa-mir-3910 ; hsa-mir-3714 ; hsa-mir-506-3p
Nearest miRNA
hsa-mir-10393/Upstream/498927; hsa-mir-11181/Downstream/457804;
Nearest TSS
ENST00000557528/Upstream/435; ENST00000566239/Downstream/24924;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/75725, chr15-CpG: 106/Downstream/24833
Upstream sequence
ACAGGACTTGATCTGAAAACGCCTCTTAACAGGCattttatatataaattttatatatattttatatataaaatGCCTGTTAAGAGGCGTTTTATATATA
Downstream sequence
TACATGttttgttttttttttgttttttttgagatggagtcttgcttttttcgtccaggctggagtgcaacagcgcagttttggcttactacaacctctg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate