Basic Information
VIS ID
TVIS30009598
Fusion event
HIV-OXR1 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
chr8
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
107316549/106304321 (Hg38)
End
107316549/106304321 (Hg38)
Orient
+
Location type
Intronic
Target gene
OXR1
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-200b-3p ; hsa-mir-567 ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-4781-3p ; hsa-mir-144-3p ; hsa-mir-3144-3p ; hsa-mir-3915 ; hsa-mir-6730-3p ; hsa-mir-4689 ; hsa-mir-6858-5p ; hsa-mir-1224-5p ; hsa-mir-3928-3p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-586 ; hsa-mir-875-5p
Nearest miRNA
hsa-mir-12123/Upstream/1819856; hsa-mir-10400/Downstream/6339172;
Nearest TSS
ENST00000518652/Upstream/34085; ENST00000521963/Downstream/55155;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/32673, chr8-CpG: 63/Downstream/353440
Upstream sequence
aaGGCAAACTGGATTCTTTCTTTTGCTTGAAGACATATTTTCTTGGAAAAGTGTTTTGAATTTGATCATTTCTTCTGTCTGAAGTCAAAGCTTAGAATTA
Downstream sequence
TATCTAATAAGTAAATTGTCAGACTAGCCAGCTATTCTCAAAAAATGTTGGACATATCATTGTGCATTTTAATTTGAAGTCAGATGAATCCACAGATTTA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate