Basic Information
VIS ID
TVIS30012670
Fusion event
HIV-LINC01808 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
chr2
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
19681637/19481876 (Hg38)
End
19681637/19481876 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC01808
Nearest miRNA
hsa-mir-3125/Upstream/133371; hsa-mir-10b/Downstream/5846764;
Nearest TSS
ENST00000437798/Upstream/12855; ENST00000432822/Downstream/229839;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/118672, chr2-CpG: 39/Downstream/386791
Nearby gene
OSR1(No orient, 123265)
Upstream sequence
attattattgttgttgctgtcatttaattaatttacttatttttatggtaagatctattatcttagcaaatgttaagtctacaatattatatatgctgta
Downstream sequence
tagatctccagaagttattcatcttgcattactgaaagtttgtaccctttaaccaacacctcctcctttctccctacccatcccctagcaaccaccattc
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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