Basic Information
VIS ID
TVIS30007631
Fusion event
HIV-LINC01317 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
34394113/34169046 (Hg38)
End
34394113/34169046 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC01317
Nearest miRNA
hsa-mir-1301/Upstream/750482; hsa-mir-10b/Downstream/1302359;
Nearest TSS
ENST00000437798/Upstream/101820; ENST00000422558/Downstream/214742;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/441429, chr2-CpG: 191/Downstream/2186208
Upstream sequence
ATATACTAGAAAATAATCAGAATTTGGTTTAAAATAAAATGATAATGCAACATTTTTATACAATGAAGCAGTTCATAAATGCTTAGGTATAAGGTCAGGG
Downstream sequence
AATACAAAGACAATAAAACTCTAATATCTTAAAAGAACCCAAAAAAGGTAGCAAAAAATTTCAAAATATGAAAGCTAGCTATAGCAGTGAACACTAGTAT
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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