Systematic analysis of alternative first exons in plant genomes

BMC Plant Biology

Table 4 secondary structure formation analysis at 5' splice sites of AFEs

	Constitutive (± SD) *	AFE Type I			AFE Type II
		Total	Major**	Minor**	Total	Major**	Minor**
Rice	-19.22 ± 5.59	-23.61 ± 8.62	-24.28 ± 8.37	-23.00 ± 8.79	-22.45 ± 7.8	-24.7 ± 8.51	-20.37 ± 6.46
Comparison with constitutive sites ***		3.2796e-071	1.8749e-061	9.6957e-035	9.6069e-082	1.7511e-160	3.0208e-012
Arabidopsis	-17.80 ± 4.33	-15.09 ± 5.10	-14.59 ± 5.38	-15.60 ± 4.62	-16.52 ± 4.98	-16.47 ± 4.89	-16.46 ± 5.29
Comparison with constitutive sites ***		1.6711e-028	4.5892e-022	1.3987e-011	4.7938e-015	1.9863e-009	2.9444e-009

* Secondary structure formation was measured as Minimal Folding Energy (MFE) by MRNAFOLD. Lower scores indicate a higher likelihood of an input sequence to form a secondary structure;
** Major and minor types of alternative first exons within each gene cluster were determined as described in the Methods section.
*** P-values were determined using t-tests.

ISSN: 1471-2229