Basic Information
VIS ID
TVIS30013741
Fusion event
HIV-TNFSF8 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
q33.1
Reference genome
GRCh37/hg19
Start
117684600/114922320 (Hg38)
End
117684600/114922320 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9E ; FRA9B
Target gene
TNFSF8
miRNAs that regulate target gene
hsa-mir-2115-5p ; hsa-mir-9500 ; hsa-mir-4724-5p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-5696 ; hsa-mir-342-3p ; hsa-mir-205-5p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-6736-3p ; hsa-mir-4267 ; hsa-mir-500b-3p ; hsa-mir-1228-3p ; hsa-mir-2681-5p ; hsa-mir-6510-5p
Nearest miRNA
hsa-let-7a-1/Upstream/712791; hsa-mir-12126/Downstream/5322659;
Nearest TSS
ENST00000422679/Upstream/18012; ENST00000477580/Downstream/8097;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/310524, chr9-CpG: 77/Downstream/1231763
Upstream sequence
AGCAGATGCAATGAGCTCCTGAATTTGCTTTGGACACAAAATGCCCCCGTGGACCAAAAATGATCAAAGGCAGCTCTGTTTGGAATATGCCAGGGGAAGT
Downstream sequence
CCACATTCCTTTCCTTGTTGCCCTCACATAGTCTTGTAAGGTGGGCTCTGGCTCATGGCCCAAAGGGACTTTTGCCAAGGATACCTCTTATTTTCAagct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate