Basic Information
VIS ID
TVIS30008628
Fusion event
HIV-LEF1 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
chr4
Cytoband
q25
Reference genome
GRCh37/hg19
Start
109063822/108142666 (Hg38)
End
109063822/108142666 (Hg38)
Orient
-
Location type
Intronic
Target gene
LEF1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-34a-5p ; hsa-mir-218-5p ; hsa-mir-449a ; hsa-mir-34c-3p ; hsa-mir-452-5p
Nearest miRNA
hsa-mir-12113/Upstream/6812252; hsa-mir-1243/Downstream/1346032;
Nearest TSS
ENST00000502981/Upstream/59253; ENST00000503574/Downstream/22529;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/152452, chr4-CpG: 223/Downstream/23925
Nearest cancer related gene
LEF1(OG, No orient, 0)
Upstream sequence
AAATACATTGTGTAATTCATCCATTATTACATTTAAAATCAACATAAAAAGCAAGCAGGGCGACCATAAATCACTATACTATGTCTCTGGTGCTACATAT
Downstream sequence
AGTGTTACATATGTCCAGTAATCACTCCCTAGTAAGAAAACCTTCCGTTATTCCAATTCTAATTTTTAATTGCTGCCTTTGAAAATGTCTGCCCTAATCA
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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