Finding exonic islands in a sea of non-coding sequence: splicing related constraints on protein composition and evolution are common in intron-rich genomes

Additional data file 1:

Amino acid trends for all species and associated statistics.

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Additional data file 2:

Amino acid trends and associated statistics for homology-reduced gene sets of D. melanogaster and C. elegans.

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Additional data file 3:

Protocol for homology reduction of C. elegans and D. melanogaster orthologues.

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Additional data file 4:

Protocol for covariate analysis of abundance trends.

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Additional data file 5:

Covariates of amino acid trends by species.

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Additional data file 6:

By-species cross-correlations for covariates of amino acid trends.

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Additional data file 7:

Best blast hits of SR proteins against C. neoformans genes and Pfam domain scores in those genes.

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Additional data file 8:

Analysis of ESE positioning in relation to the reading frame.

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Additional data file 9:

Re-sampling distributions of evolutionary rates.

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Additional data file 10:

Rank correlations between K_A and the proportion of sequence near the exon-intron boundary.

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Additional data file 11:

Detailed characterization of specific local discontinuities.

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Additional data file 12:

Sources of exon datasets.

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Additional data file 13:

Gene model IDs from which exons were derived.

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Additional data file 14:

Examples of locally discontinuous preference trends.

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Additional data file 15:

Local discontinuities across selected species.

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