Basic Information
VIS ID
TVIS30010187
Fusion event
HIV-SF3B2 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
q13.1
Reference genome
GRCh37/hg19
Start
65831901/66064430 (Hg38)
End
65831901/66064430 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
SF3B2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-93-3p ; hsa-mir-615-3p ; hsa-mir-18a-3p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-324-5p ; hsa-mir-331-3p ; hsa-mir-342-3p ; hsa-mir-3189-3p
Nearest miRNA
hsa-mir-10392/Upstream/415177; hsa-let-7a-2/Downstream/870004;
Nearest TSS
ENST00000527297/Upstream/3739; ENST00000534765/Downstream/211;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/11677, chr11-CpG: 139/Downstream/5353
Upstream sequence
attttagttgttgctctggggtttatagatcatgtctttatcaggatctaccttctcttgatgttacactgcttccagatagtattaagagccattatag
Downstream sequence
tatacttcatttctctcctcccaatttttgcactatattgtcatatattcacttttacatatgttataaatcctatactatatagttattatttttgttt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate