Basic Information
VIS ID
TVIS30013416
Fusion event
HIV-LINC01016 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
chr6
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
33859059/33891282 (Hg38)
End
33859059/33891282 (Hg38)
Orient
-
Location type
ncRNA_exonic
Fragile sites / regions
FRA6H
Target gene
LINC01016
Nearest miRNA
hsa-mir-1236/Upstream/193048; hsa-mir-10398/Downstream/7853;
Nearest TSS
ENST00000381078/Upstream/87271; ENST00000526556/Downstream/1468;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/102053, chr6-CpG: 21/Downstream/136879
Upstream sequence
TTCTGAGAAAGCAATTTGGGAGAATGATTTCCCCCCTCGAACCCAAGCCTTCCTTCTCTGGCTCCCTGGCTGAGGCCAAAGTATAGCCCAGACCTGCTTC
Downstream sequence
CAGATCTATCCTCCTCCTGCAGTCGCTCCAGCCACTCCACCACTCCGCCAGGGCCAAACTGCACTTCTTCCAGCCTGATACCCTCTTTCCTGCTGGGCTC
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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