Basic Information
VIS ID
TVIS30010027
Fusion event
HIV-BRCC3 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
chrX
Cytoband
q28
Reference genome
GRCh37/hg19
Start
154334943/155106668 (Hg38)
End
154334943/155106668 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRAXE ; FRAXF
Target gene
BRCC3
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-92a-3p ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4635 ; hsa-mir-7705 ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-1264 ; hsa-mir-3184-3p ; hsa-mir-297 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-574-5p ; hsa-mir-511-3p ; hsa-mir-3121-5p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-7977 ; hsa-mir-3157-5p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-6849-3p ; hsa-mir-4692 ; hsa-mir-4514 ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-4742-5p ; hsa-mir-4691-3p ; hsa-mir-596 ; hsa-mir-670-3p
Nearest miRNA
hsa-let-7f-2/Upstream/219210; hsa-mir-1184-2/Downstream/276432;
Nearest TSS
ENST00000429181/Upstream/33257; ENST00000460509/Downstream/41107;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/35148, chrX-CpG: 23/Downstream/109575
Upstream sequence
tgtagcatttcttcattaagaaagattctgtattcaggaaaaatcataagtgctatcagaaatattctttttttgtactgtctttatcaggtttaggtat
Downstream sequence
atatattacacttgcttcagaagaattgtttggagttttctttcactgtctaggctgtgacagaaatgtaagtagcagtgagacaatcagttctttgaca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate