Basic Information
VIS ID
TVIS30007621
Fusion event
HIV-BABAM2 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
chr2
Cytoband
p23.2
Reference genome
GRCh37/hg19
Start
28137854/27914987 (Hg38)
End
28137854/27914987 (Hg38)
Orient
+
Location type
Intronic
Target gene
BABAM2
miRNAs that regulate target gene
hsa-mir-124-3p
Nearest miRNA
hsa-mir-1301/Upstream/2586266; hsa-mir-10b/Downstream/81380;
Nearest TSS
ENST00000437798/Upstream/20367; ENST00000460736/Downstream/395472;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/24090, chr2-CpG: 302/Downstream/475110
Upstream sequence
GTCAAAAAAGTTTGAAAGCCTCTGGCCTAGACTAGATGCTTCCTGTCCTTGTTTCTCTGATGGCTCTGTCTAGTCTCTGCTTGCTCTGCAGCCAATTTAC
Downstream sequence
ATGCCCCATCTTGATATTCTTCTCTTTGTTTCCCTGTAAATTTCTGCTGTGTAACATGAGAGGCATGATGGGCTCCATTAGATTTGCTTTAGGACACTGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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