Basic Information
VIS ID
TVIS30002011
Fusion event
HIV-BORCS5 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
chr12
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
12558523/12405589 (Hg38)
End
12558523/12405589 (Hg38)
Orient
+
Location type
Intronic
Target gene
BORCS5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4474-3p ; hsa-mir-7108-5p ; hsa-mir-6870-3p ; hsa-mir-205-5p ; hsa-mir-6793-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-6729-3p ; hsa-mir-500b-5p ; hsa-mir-362-5p ; hsa-mir-640 ; hsa-mir-1299 ; hsa-mir-378a-5p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-3653-5p ; hsa-mir-6777-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-7107-5p ; hsa-mir-1234-3p ; hsa-mir-4725-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/293553; hsa-let-7i/Downstream/359060;
Nearest TSS
ENST00000382841/Upstream/48171; ENST00000544086/Downstream/79764;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/48095, chr12-CpG: 111/Downstream/156110
Upstream sequence
TTTTTTATTATGATGATTATTTTTACTTTACTTACTTAGTATAggggattacctgccttttaatgtcatcctgacaattaagacaaaatacagaacatgc
Downstream sequence
ttagcacagtgcttggctgagagagtgccatcattaatattaggcattattTTTCTTATTCTTGAAATACAGTGTTTTATATAGTGCCTGGCATGTAGTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate