Basic Information
VIS ID
TVIS30012872
Fusion event
HIV-TOP1 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
chr20
Cytoband
q12
Reference genome
GRCh37/hg19
Start
39712483/41083843 (Hg38)
End
39712483/41083843 (Hg38)
Orient
+
Location type
Intronic
Target gene
TOP1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-26b-5p ; hsa-mir-24-3p ; hsa-mir-484 ; hsa-mir-186-5p ; hsa-mir-374a-5p ; hsa-mir-23a-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/2567211; hsa-mir-1-1/Downstream/85180;
Nearest TSS
ENST00000382410/Upstream/55025; ENST00000490253/Downstream/53117;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/54071, chr20-CpG: 175/Downstream/52746
Upstream sequence
TGGGATCTTCACTTGTTGAATATTACATTTTTGTTTGGGTTTTGTGTGTATGTTTTGAGATTCATCTCCTGTATTGGTGAATTGTGCCTGTTTAGGTTTG
Downstream sequence
ATGCCCGTTTATTGTGTCACTGTGATCAGCTCATTTACATTCAGAGTTCAAAGAAGAGCCATAAAGAAATACCACCATAGGAATTGGTGTCATTTTAGAA
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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