Basic Information
VIS ID
TVIS30006388
Fusion event
HIV-LINC00333 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
chr13
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
85176184/84602049 (Hg38)
End
85176184/84602049 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LINC00333
Nearest miRNA
hsa-mir-1297/Upstream/6903933; hsa-mir-1267/Downstream/3016616;
Nearest TSS
ENST00000623511/Upstream/39685; ENST00000424926/Downstream/476871;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/722287, chr13-CpG: 121/Downstream/3069265
Upstream sequence
gaatttgtaatgattctaggtatttagggtataaatcactttgaatatttattatgtcaacattttggaaaatttcttttctagttattttgTTACtttt
Downstream sequence
attattatttttttttttgagacgtagtcttgctctgttgcccaggctggagtgcaatggtgcaatcttggctcactgcagcctctgcctcctgggttag
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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