Basic Information
VIS ID
TVIS30010716
Fusion event
HIV-CHD6 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
40107546/41478906 (Hg38)
End
40107546/41478906 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHD6
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/309828; hsa-mir-1-1/Downstream/2929214;
Nearest TSS
ENST00000382410/Upstream/63841; ENST00000431589/Downstream/5601;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/112030, chr20-CpG: 130/Downstream/138800
Upstream sequence
attctaaatctctagaacataatattcactagggctagggaaaaattcagttattctcattctcaagggaacaggcaattaacagatgtcaacgtcaaac
Downstream sequence
ctacaatgttataattcagacaagaactttaaagctgctattatgctgacgcttaatgaagtcaaggaatgttaagtaatgaataaaaagaaaagaaaac
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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