Basic Information
VIS ID
TVIS30013282
Fusion event
HIV-LINC02427 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
chr4
Cytoband
q35.1
Reference genome
GRCh37/hg19
Start
185430386/184509232 (Hg38)
End
185430386/184509232 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC02427
Nearest miRNA
hsa-mir-12113/Upstream/2339854; hsa-mir-3945/Downstream/341781;
Nearest TSS
ENST00000502981/Upstream/34652; ENST00000509538/Downstream/456;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/34205, chr4-CpG: 110/Downstream/139575
Nearby gene
IRF2(No orient, 34660)
Upstream sequence
ctgctttaaccaatagaggatgggaaaagtgacactctgtgactctaagactagattataaaaggcaatgccatatcctactggctttttcttgggatac
Downstream sequence
tcactcttggaaaccagtggccgtggtgtcaggaagcccacaccacacgttgaagccccagctgaagtcctgttagtcccagtaatcctcagactgtagg
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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