Evolution of alternative and constitutive regions of mammalian 5'UTRs

BMC Genomics

Table 6 Substitution rates for alternative and constitutive regions of 5'UTR

Human-Macaque		Ka	Ks	K_5(uORFs)	K_{5(uORFs excluded)}
ALT	all	0.045 ± 0.001	0.052 ± 0.001	0.047 ± 0.001	0.054 ± 0.001
	≥ 30 bp	0.046 ± 0.001	0.051 ± 0.002
CONSTIT	all	0.040 ± 0.001	0.046 ± 0.002	0.042 ± 0.001	0.051 ± 0.002
	≥ 30 bp	0.041 ± 0.002	0.048 ± 0.003
Mouse-Rat
		Ka	Ks	K _5(uORFs)	K _{5(uORFs excluded)}
ALT	all	0.092 ± 0.002	0.111 ± 0.002	0.099 ± 0.002	0.098 ± 0.001
	≥ 30 bp	0.094 ± 0.004	0.114 ± 0.005
CONSTIT	all	0.088 ± 0.003	0.103 ± 0.004	0.093 ± 0.002	0.100 ± 0.001
	≥ 30 bp	0.091 ± 0.004	0.108 ± 0.007

Substitution rates for alternative and constitutive regions of 5'UTR were estimated for human-macaque (top tier) and mouse-rat (bottom tier). Evolutionary rates for non-synonymous (Ka) and synonymous (Ks) sites from uORFs within ALT and CONSTIT regions were estimated using the Pamilo-Bianchi-Li method. Rates were calculated for all uORFs (all) and for the subset of uORFs ≥ 30 nts in length (≥ 30 bp). Evolutionary rates were also calculated for regions of 5'UTR that contain uORFs (K_{5 uORFs}) and for regions without (K_{5 uORFs excluded}), using the Kimura-2-Parameter method.

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