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Open Access Highly Accessed Research article

Modeling the evolution dynamics of exon-intron structure with a general random fragmentation process

Liya Wang1 and Lincoln D Stein123

Author Affiliations

1 Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA

2 Ontario Institute for Cancer Research, 101 College St. Suite 800, Toronto, ON M5G0A3, Canada

3 Department of Molecular Genetics, University of Toronto, 1 King's College Circle, Toronto, ON M5S 1A8, Canada

BMC Evolutionary Biology 2013, 13:57  doi:10.1186/1471-2148-13-57

Published: 28 February 2013

Additional files

Additional file 1: Figure S1:

has the size distribution of non-vertebrate exons. Figure S2 has the size distributions of H. sapiens exons grouped by position, supporting the plot in Figure 3. Figure S3 shows that the distribution of proto-splice sites within H. sapiens coding sequences is uniform. Figure S4 shows the size distribution of simulated exons with different dependency values. Figure S5 shows the linear relationship between expected and observed standard deviation of insertion ratios. Figure S6 illustrates four different groups of insertion ratios. Figure S7 shows the distribution of insertion ratio for each of the four groups and their mixture. Figure S8 shows the distribution of fragment size after a certain percentage of intron losses, supporting Figure S9A. Figure S10 shows the distribution of insertion ratios after a certain percentage of intron loss, supporting Figure S9B. Figure S11 shows the linear relationship between the number of splitting and total CDS length for each H. sapiens chromosome.

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