Basic Information
VIS ID
TVIS30013279
Fusion event
HIV-LINC00290 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
q34.3
Reference genome
GRCh37/hg19
Start
181992802/181071649 (Hg38)
End
181992802/181071649 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC00290
Nearest miRNA
hsa-mir-12113/Upstream/6647785; hsa-mir-1305/Downstream/1097644;
Nearest TSS
ENST00000502981/Upstream/312611; ENST00000512480/Downstream/87500;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1012183, chr4-CpG: 20/Downstream/1069476
Upstream sequence
GGTGAATGCATACACTTAAAACATTTCTTGTATACTTCCCATTGCTCTAATAAAACGAAAGTTATATTCTCATTTGTTATCTATGTCTAATGTCTCACAA
Downstream sequence
ATACtttttttttttttttttgagacggagtctcgctctgtcacccaggctggagtccagtggtgcaatctcggctcactgcaacctctccctcaagcta
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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