Basic Information
VIS ID
TVIS30006755
Fusion event
HIV-RBFOX1 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
7160494/7110493 (Hg38)
End
7160494/7110493 (Hg38)
Orient
-
Location type
Intronic
Target gene
RBFOX1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-let-7b-5p ; hsa-mir-3157-5p ; hsa-mir-153-5p ; hsa-mir-935 ; hsa-mir-4691-3p ; hsa-mir-1305 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-498 ; hsa-mir-4753-3p ; hsa-mir-627-3p ; hsa-mir-6832-3p ; hsa-mir-562
Nearest miRNA
hsa-mir-1225/Upstream/1477927; hsa-mir-11401/Downstream/4195947;
Nearest TSS
ENST00000527434/Upstream/336684; ENST00000569889/Downstream/222257;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/626511, chr16-CpG: 23/Downstream/193839
Upstream sequence
ctacattgaggggttgaaagatgaatttgcttgcaaaacacagcaaatatgagtggagacaagacttcagccAATTAACACAGGGCTCCGGCTTAAGGAG
Downstream sequence
AGCCTGAGCACAGTAGTTGCATAGTTGGTTATTTTAACAATAAAATCTAAGAACTTCGAGTACACAGTGGCTAATAGCTAGGAGGGATCTCTGGGCACGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate