Basic Information
VIS ID
TVIS30001709
Fusion event
HIV-RNU5F-1 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
q41
Reference genome
GRCh37/hg19
Start
220058026/219884684 (Hg38)
End
220058026/219884684 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
RNU5F-1
Nearest miRNA
hsa-mir-101-1/Upstream/7806999; hsa-mir-1182/Downstream/233169;
Nearest TSS
ENST00000473358/Upstream/271539; ENST00000490891/Downstream/34346;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/271464, chr1-CpG: 116/Downstream/43106
Upstream sequence
cccaatagtttttaataatatttctatgctgatcattctcataatttatgtcatcatctctgacctcttctgtaagctccagacttggatatccaactgc
Downstream sequence
ctacttaaaatctccacttggatgtcaagtgggcatacaaaccttaacatgAACaaaacagaactattaaataaacaacaaaaaagagtcaaacaataaa
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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