Basic Information
VIS ID
TVIS30008273
Fusion event
HIV-TOP2B 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
chr3
Cytoband
p24.2
Reference genome
GRCh37/hg19
Start
25695426/25653935 (Hg38)
End
25695426/25653935 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA3A
Target gene
TOP2B
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6513-5p ; hsa-mir-3180-5p ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1290 ; hsa-mir-1248 ; hsa-mir-6849-3p ; hsa-mir-3614-3p
Nearest miRNA
hsa-mir-12127/Upstream/5516294; hsa-let-7g/Downstream/10938;
Nearest TSS
ENST00000440867/Upstream/23780; ENST00000460195/Downstream/10437;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/823335, chr3-CpG: 125/Downstream/10130
Upstream sequence
acaaaatgaagggcaaaaaacacattatcatctcaattgatgtgcaaaaagcatttgacaaaattcaacacactttcctgataaaaacacataacaaact
Downstream sequence
agaaatagaaagaaaacacctcaatataataaaagcaatacacacaaagccaacagctaacagcacatatactggtgaaagactaaaaacttttcctcta
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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