Basic Information
VIS ID
TVIS30009243
Fusion event
HIV-COL28A1 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
chr7
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
7511492/7471861 (Hg38)
End
7511492/7471861 (Hg38)
Orient
-
Location type
Intronic
Target gene
COL28A1
Nearest miRNA
hsa-mir-339/Upstream/404816; hsa-mir-10399/Downstream/10655359;
Nearest TSS
ENST00000635602/Upstream/34426; ENST00000433056/Downstream/48212;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/288518, chr7-CpG: 85/Downstream/94880
Upstream sequence
gcgggcacctgcaatcccagctactcaggaggctgaggcaggagaattgcttcaacctgggaggtggaggttgcagtgaactgagatggcaccactgcac
Downstream sequence
tctggcctgggcaacaaagtgagaccctgcctcaaaaaaacaaaacaagaaacaaaaatcacatgatgatctcaatagatgcagaaagagcatttgacaa
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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