Basic Information
VIS ID
TVIS30007169
Fusion event
HIV-BCAS3 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
chr17
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
59117055/61039694 (Hg38)
End
59117055/61039694 (Hg38)
Orient
-
Location type
Intronic
Target gene
BCAS3
miRNAs that regulate target gene
hsa-mir-1278 ; hsa-mir-1285-3p ; hsa-mir-2861 ; hsa-mir-3187-5p ; hsa-mir-326 ; hsa-mir-330-5p ; hsa-mir-3664-5p ; hsa-mir-3667-3p ; hsa-mir-378g ; hsa-mir-4486 ; hsa-mir-4714-5p ; hsa-mir-514a-5p ; hsa-mir-5189-5p ; hsa-mir-612 ; hsa-mir-6734-3p ; hsa-mir-6860 ; hsa-mir-6883-3p
Nearest miRNA
hsa-mir-10226/Upstream/996589; hsa-mir-1250/Downstream/1904521;
Nearest TSS
ENST00000595228/Upstream/22730; ENST00000588008/Downstream/30428;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/361575, chr17-CpG: 720/Downstream/356005
Upstream sequence
gtatttttactagagacagggtttcactgtgttagtcaggatggtcttgatctcctgacctcatgatccacccacctcggcctcccaaagtgctgggatt
Downstream sequence
acaggcgtgagccaccgcgccggcccatgaacatatttttttaattgtcttctgtatgtaccttggagAATACCTCTGTTTGAACTTATTTCCCCCTTGC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate