Basic Information
VIS ID
TVIS30008815
Fusion event
HIV-LINC02488 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
chr5
Cytoband
q14.3
Reference genome
GRCh37/hg19
Start
86971952/87676135 (Hg38)
End
86971952/87676135 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC02488
Nearest miRNA
hsa-mir-10397/Upstream/561181; hsa-mir-103a-1/Downstream/990718;
Nearest TSS
ENST00000502646/Upstream/14093; ENST00000504636/Downstream/57134;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/263074, chr5-CpG: 30/Downstream/465143
Nearby gene
CCNH(No orient, 263102)
Upstream sequence
aaatgtctacaccacaaaaagtctatgccacaaaaaattcacattctaattgggaaagcagactataaacaagtatgcaaatgcataatatacatagtaa
Downstream sequence
gaatacatagtaatacataatatacatattaggaataaaatgtgtacaaagaataaatagtaagaataaaacattctggtaagaaattaaagtaggatag
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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