Basic Information
VIS ID
TVIS30001439
Fusion event
HIV-LINC01128 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
chr1
Cytoband
p36.33
Reference genome
GRCh37/hg19
Start
777213/841833 (Hg38)
End
777213/841833 (Hg38)
Orient
+
Location type
ncRNA_exonic
Fragile sites / regions
FRA1A
Target gene
LINC01128
Nearest miRNA
hsa-mir-12136/Upstream/209148; hsa-mir-101-1/Downstream/325271;
Nearest TSS
ENST00000473358/Upstream/14311; ENST00000448179/Downstream/28368;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/13768, chr1-CpG: 28/Downstream/11650
Upstream sequence
tatctacaacatcagtttgccatgagtattgaaaaataatgtcttagaagcacagggcagagcctggcatgtagtttgtgctcagtgcacagcagACAAG
Downstream sequence
AAACCACATGCACCAGACCTGGGCGGCCGTCGGCAGCCCACCCTGAGCAACCATGGGTGGCCCTCTTGTCTCTCGGGACAAGAAATGCTTCTTTAGAAAT
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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