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IMIM UPF CRG GRIB Resources & Datasets Mulitple-species conservation

	Multiple-species conservation vs evolvability: case study of splicing regulators
	Contents Abstract Methods Data Results ABSTRACT   Between-species conservation as a source of information on functionality: METHODS   Naive conservation measure versus Phylogenetic conservation DATA   Multiple alignments of the orthologous exon sequences set of 8775 constitutive exon pruned set of exons of 8583 exons with weak 3' splice site (README) exons with strong 3' splice site exons with weak 5' splice site exons with strong 5' splice site Splice site partitions of the orthologous exon alignments Position weight matrices for scoring the SS (PWMs) 3' SS 5' SS Putative Exonic Splicing Regulator Sequences regulatory pentamers ESEs ``training neutral'' hexamers ``testing neutral'' hexamers Tree inference Exon alignments with the positions extracted random samples ESE Phylogenetic trees for the data sets weak 3'SS strong 3'SS weak 5'SS strong 5'SS all synonymous genomic positions wobble positions excluding its subset covered by the ESEs Ranking of all pentamers according to the preservation scores across the multiple-species alignment (increasing order) scores attained by the Naive-Conservation measure (human-as-reference base comparison) ...corresponding motifs scores attained by the Phylo-Conservation measure (including the phylogenetic information) ...corresponding motifs pentamers removed from the analysis for the insufficient data (few occurrences) RESULTS   results ....   Disclaimer webmaster