Basic Information
VIS ID
TVIS30001940
Fusion event
HIV-EED 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
chr11
Cytoband
q14.2
Reference genome
GRCh37/hg19
Start
85969496/86258454 (Hg38)
End
85969496/86258454 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11F
Target gene
EED
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-138-5p ; hsa-mir-26b-5p ; hsa-mir-30c-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-3977 ; hsa-mir-6780a-3p ; hsa-mir-6794-3p ; hsa-mir-3160-5p ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-6728-3p ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-483-3p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-10392/Upstream/4367618; hsa-let-7a-2/Downstream/19879;
Nearest TSS
ENST00000527297/Upstream/13186; ENST00000533228/Downstream/5491;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/12979, chr11-CpG: 23/Downstream/116197
Nearest cancer related gene
EED(TSG, No orient, 0)
Upstream sequence
GGATAAGTTATTTGAAATATTCCCATAAAGGGAAAGCATTGCATTTTGGAAATCACTACCTCTAGGAAGAGTTGATTACTTTTTCTTGTCTCTTGATAAC
Downstream sequence
ACTAATTGGGGCTCAGATATTTCTGAACAACTGTATAGACCGTAATGCCTCACTTGTTCTAAATATTACAACTTTTTTTTTCTCTTTTCtttgttttttg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate