Research
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals
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* Corresponding author: Laurence D Hurst l.d.hurst@bath.ac.uk
Department of Biology and Biochemistry, University of Bath, Bath BA2 7AY, UK
Genome Biology 2005, 6:R75 doi:10.1186/gb-2005-6-9-r75
Published: 16 August 2005Additional files
Additional data file 1:
Sequences for all 70 mouse mRNAs in FASTA format.
Format: TXT Size: 145KB Download file
Additional data file 2:
A table of the stability of mRNA secondary structures excluding the Gadd45a gene, where the rat-mouse common ancestor sequence differed slightly using the parsimony and maximum likelihood reconstructions.
Format: DOC Size: 30KB Download file
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Additional data file 3:
A table of the stability of mRNA secondary structures for short genes (only considers mRNAs shorter than 2,000 nucleotides).
Format: DOC Size: 31KB Download file
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Additional data file 4:
Stability and relative stability values for individual genes.
Format: TXT Size: 17KB Download file
Additional data file 5:
Sequence identifiers for each mouse gene.
Format: TXT Size: 55KB Download file
Additional data file 6:
Ontology information for each mouse gene.
Format: TXT Size: 110KB Download file
Additional data file 7:
Miscellaneous correlations for short genes, including GC4 skew versus Z(ΔGSh.4-fold), GC12 skew versus GC3 skew (separately for base-paired and unpaired sites) and Z(ΔGRe-sub.N3) versus Ks at base-paired sites.
Format: DOC Size: 26KB Download file
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Additional data file 8:
A table of correlations between GC skew at first/second sites versus skew at third sites, provided for a series of thresholds where the sites analyzed must have a minimum probability of base-pairing.
Format: DOC Size: 33KB Download file
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Additional data file 9:
A FASTA file containing three-way alignments of coding sequences from hamster, rat and mouse orthologous genes.
Format: TXT Size: 264KB Download file
Additional data file 10:
A table of correlations for short genes, between the proportion of base-paired sites and non-synonymous or synonymous substitution rates within the coding sequence, base-paired sites and unpaired sites.
Format: DOC Size: 26KB Download file
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