Basic Information
VIS ID
TVIS30000865
Fusion event
HIV-LINC02347 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr12
Cytoband
q24.32
Reference genome
GRCh37/hg19
Start
126947612/126463066 (Hg38)
End
126947612/126463066 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA12E
Target gene
LINC02347
Nearest miRNA
hsa-let-7i/Upstream/1547407; hsa-mir-3612/Downstream/1831026;
Nearest TSS
ENST00000382841/Upstream/18185; ENST00000544711/Downstream/227194;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/271417, chr12-CpG: 83/Downstream/263166
Upstream sequence
TAATATTCAGGGCTTTAGGAAATGAATCATATGCAGAAACATCTTAGTCTAAAATAAACTCCTTTTCCAGACCCAGGAATAAAGACTTTGCTATTTCTGT
Downstream sequence
CAATAGAAATTAATTTATATCTGTCTGAGAATTCAGAAGCTGTTGAAGCATTGAATTTGCAGTAATAGGGAGCTCTTATAAATCACCAACTGTCATTAAT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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