Comparison of class 2 transposable elements at superfamily resolution reveals conserved and distinct features in cereal grass genomes
1 Department of Plant Biology, University of Georgia, Athens, GA 30602, USA
2 Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
BMC Genomics 2013, 14:71 doi:10.1186/1471-2164-14-71Published: 31 January 2013
Additional file 1:
Summary of Class 2 transposable elements from five superfamilies in four sequenced grass genomes.
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Additional file 2:
The double-ended copy number and length of the consensus nTEs of Tc1/mariner, PIF/Harbinger, hATand Mutatorin Brachypodium, rice, sorghum and maize. The y-axis is in log10 scale.
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Additional file 3:
Total length of nTEs from each superfamily genome-wide, intergenic and in four genic compartments.
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Additional file 4:
Distribution of nTE sequence frequency within introns of Brachypodium (A), rice (B), sorghum (C) and maize (D). The left and right starting points represent the 5′ and 3′ borders of introns, respectively. Colors of superfamilies are the same as in Figure 1.
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Additional file 5:
Comparison of the expression of genes associated with different class 2 TE superfamily members vs. genes without class 2 TEs (control) (using microarray data).
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Additional file 6:
Comparison of the expression of genes associated with different class 2 TE superfamily members vs. genes without class 2 TEs (control) (using RNA-seq data).
Format: XLSX Size: 10KB Download file