Basic Information
VIS ID
TVIS30012681
Fusion event
HIV-LINC00486 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
p22.3
Reference genome
GRCh37/hg19
Start
33151381/32926314 (Hg38)
End
33151381/32926314 (Hg38)
Orient
+
Location type
ncRNA_exonic
Target gene
LINC00486
Nearest miRNA
hsa-mir-1301/Upstream/290983; hsa-mir-10b/Downstream/492202;
Nearest TSS
ENST00000437798/Upstream/43513; ENST00000440786/Downstream/813;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/298111, chr2-CpG: 164/Downstream/20067
Upstream sequence
attttagtaaataatgttttactggaatccagacacgcttgtttgattacatattgtctatggctgctgagcacccactataagggcaaagttaagtaga
Downstream sequence
tagagactttatcacccacaaaacctaaaatatttgactggatggccctctacagaaaaagcctgcgaaccTGTGGTCTTGTGGGAGGACACTGCTGGGC
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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