Basic Information
VIS ID
TVIS30012811
Fusion event
HIV-SP100 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
chr2
Cytoband
q37.1
Reference genome
GRCh37/hg19
Start
231305000/230440285 (Hg38)
End
231305000/230440285 (Hg38)
Orient
+
Location type
Intronic
Target gene
SP100
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-18a-5p ; hsa-mir-196a-5p ; hsa-mir-196b-5p ; hsa-mir-18b-5p ; hsa-mir-3606-5p ; hsa-mir-3907 ; hsa-mir-4735-3p ; hsa-mir-6073 ; hsa-mir-624-3p ; hsa-mir-218-5p ; hsa-mir-3934-3p ; hsa-mir-493-3p ; hsa-mir-381-3p ; hsa-mir-300
Nearest miRNA
hsa-mir-10b/Upstream/2968098; hsa-mir-1244-1/Downstream/922423;
Nearest TSS
ENST00000437798/Upstream/23529; ENST00000470940/Downstream/9090;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/371451, chr2-CpG: 125/Downstream/272309
Nearest cancer related gene
SP100(TSG, No orient, 0)
Upstream sequence
tagaaataattgtttggaaagaaacagtaagtcagtctatttgttcatgatataattattttctttaaaatacaaaggaaatctataaataatttactag
Downstream sequence
aaatactacatgaatttagcaatgccataaattcatggttaatatgtttcaaaccaattatattttcatataatagtaataaggaatttgaaaagcatta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate