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Overview Array-Check siRNA-Check Primer-Check Peptide-Check Expression-Check Batch Array-Check Batch siRNA-Check Batch Primer-Check Batch Peptide-Check
General ReleaseNotes Database Array-Check siRNA-Check Primer-Check Peptide-Check Batch Array-Check Batch siRNA-Check Batch Primer-Check Batch Peptide-Check Expression-Check
SpliceCenter is a suite of user-friendly tools that evaluate the impact of gene splicing variation on specific molecular biology techniques. Each of the utilities has a Help panel and a link to populate a sample query. Select a SpliceCenter tool from the list below.

Interactive Graphical Tools

Batch Tools

Array-Check displays a gene's splice variants and identifies the target location of probes from common expression microarrays. This visualization identifies the variants target by each probe and allows cross-platform comparison variant coverage. Batch Array-Check accepts a file of gene symbols and returns a tabular version of the information available in Array-Check. The ouput indicates the splice variants that are targeted by each microarray probe.
siRNA-Check presents a graphical display of siRNA/shRNA target locations within the known splice variants of a gene. Effective use of RNAi to silence gene expression requires an understanding of the specific splice variants that will be targeted by a given siRNA/shRNA. Batch siRNA-Check is a high-throughput process that evaluates large numbers of siRNAs/shRNAs. Tabular position reports provide RNAi target location details and a Hit/Miss report lists targeted/non-targeted splice variants.
Primer-Check displays the target location of RT-PCR primers and microarray probes on known splice variants of a gene. When RT-PCR is used to confirm microarray results, it is important that the PCR primers and microarray probes are measuring the same splice variants. Batch Primer-Check performs high-throughput identification of the target location of PCR primers/probes. A file of primer sequences is submitted and the tabular results identify targeted/non-targeted splice variants.
Peptide-Check displays the location of the coding sequence for a protein fragment within the known splice variants of a gene. This capability is useful in identifying gene isoforms that do / do not contain the peptide sequence in question. Batch Peptide-Check performs high-throughput identification of peptide sequences within splice variants of genes. Result files indicate the gene that contains the peptide, its position within the gene and the variants that do / do not include it.
Expression-Check displays microarray expression data for a single gene in a graphic that includes the gene's splice variants. Expression values are displayed based on the target position of the microarray probes.
 

Tiger Team Bioinformatics Group