CRYP-SKIP - Homepage

Welcome to the CRYP-SKIP server!

Splice-site mutations usually induce exon skipping or cryptic splice-site activation. CRYP-SKIP employs multiple logistic regression to predict the two aberrant transcripts from the primary sequence. The server takes up nucleotide sequence of the mutated exon together with flanking intronic sequences and provides the overall probability of cryptic splice-site activation (1) as opposed to exon skipping (0). It also shows the values of the most important predictor variables for each sequence.

Insert the sequence of your exon (IN UPPER CASE) and approximately 100 nucleotides of flanking intronic sequence (in lower case) in the FASTA format in the window below. The total sequence must not be longer than 4,000 base pairs (bp). Multiple FASTA sequences with a total length of <= 4,000 bp are allowed. Click on the 'Sample sequences' button to see an example.

References

Divina, P., Kvitkovicova, A., Buratti, E., Vorechovsky, I. (2009) Ab initio prediction of mutation-induced cryptic splice-site activation and exon skipping. Eur J Hum Genet., 17, 759-765. [Pubmed] [Fulltext]

Kralovicova, J. and Vorechovsky, I. (2007) Global control of aberrant splice site activation by auxiliary splicing sequences: evidence for a gradient in exon and intron definition. Nucleic Acids Res., 35, 6399-6413. [PubMed] [Fulltext]

Buratti, E., Chivers, M.C., Kralovicova, J., Romano, M., Baralle, M., Krainer, A.R. and Vorechovsky, I. (2007) Aberrant 5' splice sites in human disease genes: mutation pattern, nucleotide structure and comparison of computational tools that predict their utilization. Nucleic Acids Res., 35, 4250-4263. [PubMed] [Fulltext]

Vorechovsky, I. (2006) Aberrant 3' splice sites in human disease genes: mutation pattern, nucleotide structure and comparison of computational tools that predict their utilization. Nucleic Acids Res., 34, 4630-4641. [PubMed] [Fulltext]

Welcome to the CRYP-SKIP server!

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References