Basic Information
VIS ID
TVIS30012341
Fusion event
HIV-SPAG9 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
chr17
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
49148432/51071071 (Hg38)
End
49148432/51071071 (Hg38)
Orient
+
Location type
Intronic
Target gene
SPAG9
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-9-5p ; hsa-mir-122-5p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-877-3p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-27b-3p ; hsa-let-7e-5p ; hsa-mir-218-5p ; hsa-mir-578 ; hsa-mir-3611 ; hsa-mir-6818-3p ; hsa-mir-4753-3p ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-1257 ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-581 ; hsa-mir-130b-5p ; hsa-mir-1284 ; hsa-mir-323b-3p ; hsa-mir-95-5p ; hsa-mir-4666a-3p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-3529-3p ; hsa-mir-200a-3p ; hsa-mir-141-5p
Nearest miRNA
hsa-mir-10226/Upstream/302341; hsa-mir-1250/Downstream/5820199;
Nearest TSS
ENST00000595228/Upstream/14647; ENST00000456492/Downstream/8551;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/126153, chr17-CpG: 99/Downstream/49090
Nearest cancer related gene
SPAG9(OG, No orient, 0)
Upstream sequence
aagatacaaaattaaatatacatcctaaccacaatgatataaaaatataatatatatgggaaaaagactagtaggccatacgcATAATCTTCCCCTTCCT
Downstream sequence
CCCCCCACTAAACTATGATTTCTTTAACCACAAGGACCATATCATACTCTTGTGTACCACAACCATACCTAGGCAGAATGCTAGGCATACTGGACCAGTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate