Basic Information
VIS ID
TVIS30005158
Fusion event
HIV-LCK 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
p35.2
Reference genome
GRCh37/hg19
Start
32725816/32260215 (Hg38)
End
32725816/32260215 (Hg38)
Orient
-
Location type
Intronic
Target gene
LCK
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-12136/Upstream/173208; hsa-mir-101-1/Downstream/1072178;
Nearest TSS
ENST00000473358/Upstream/8897; ENST00000477031/Downstream/13896;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/18675, chr1-CpG: 74/Downstream/14894
Nearest cancer related gene
LCK(OG, No orient, 0)
Upstream sequence
attctcctgcctcagccttccgagtagctgggactacaggtgtgcaccaccacgttcagctaattttttgtatttttagtagagatgaggtttcgccatg
Downstream sequence
ttggccagaatggtctcgatctcttgacctcatgatccacccacctcagcctcccaaagtgttggggttacaggtgtgaaccactgcgcctggcctttta
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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