Basic Information
VIS ID
TVIS30009686
Fusion event
HIV-SPATA6L 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
chr9
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
4601216/4601216 (Hg38)
End
4601216/4601216 (Hg38)
Orient
+
Location type
Intronic
Target gene
SPATA6L
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-1302-9/Upstream/4570935; hsa-let-7a-1/Downstream/249081;
Nearest TSS
ENST00000422679/Upstream/28881; ENST00000381883/Downstream/61099;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/109798, chr9-CpG: 66/Downstream/61036
Upstream sequence
TTATTCAGTTGAGCTGTTAAACGTGTTCCAATTAACTATATTCTACTGAACAAATttccttccttccttcccttccctccttcctcccttccttccttcc
Downstream sequence
ctccctcactcccttctttcttcctttctttcctttcttTTTGATGGAGTCTTGCTCTGTAATTTGGCACTGCACACTGGGGGCCGGGATTTCACGGCAA
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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