Basic Information
VIS ID
TVIS30011288
Fusion event
HIV-chr1 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
chr1
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
111212004/110669382 (Hg38)
End
111212004/110669382 (Hg38)
Orient
+
Location type
Intronic
Target gene
KCNA3 ; LOC107985174
Nearest miRNA
hsa-mir-101-1/Upstream/1070415; hsa-mir-11399/Downstream/1792388;
Nearest TSS
ENST00000473358/Upstream/12342; ENST00000471220/Downstream/5651;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/61818, chr1-CpG: 199/Downstream/4240
Upstream sequence
GAAAACAGAAAAATCTTGAAACTGAAAAATATCCATTGTCATAGCAGTTATCACTAAACACTACTATGACTGGTTATACTTTCTAAGATTAAATCTAGAT
Downstream sequence
AAACCAACTATAAGAAAATAATCTTTTGTTATTAGAAAAGTCAATCTCTTCATCTTATTTAAATAACTTATATTTGATGCTTATATTTGGTTAAAATACC
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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