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Table 3.

Divergence and Substitution Levels Between thePrP Gene Regions in the Three Species

		Human–sheep		Human–mouse		Sheep–mouse
		length	div.	K	length	div.	K	length	div.	K
5′ flanking	4,317	0.253	0.317	1,727	0.283	0.369	648	0.290	0.373
Exon 1	120	0.242	0.292	82	0.366	0.533	0	>0.370	>0.530
Intron 1	1,920	0.249	0.308	1,330	0.307	0.403	1,048	0.327	0.450
Exon 2	97	0.206	0.251	98	0.265	0.340	95	0.221	0.275
Intron 2	4,723	0.247	0.307	4,586	0.302	0.402	4,227	0.347	0.494
Coding region	733	0.119	0.131	738	0.131	0.146	747	0.165	0.190
Synonymous			0.489			0.594			0.709
Substitutions[ii]
Nonsynonymous			0.050			0.063			0.080
Substitutions[ii]
Exon 3 UTR	1,325	0.197	0.236	1,150	0.265	0.338	1,125	0.283	0.372
3′ flanking	2,101	0.281	0.362	3,127	0.314	0.425	1,416	0.342	0.488
Overall	15,336	0.243	0.302	12,838	0.290	0.383	9,306	0.316	0.438

[i] Divergence and substitution levels between the PrPgene regions in the three species. Insertions and deletions are ignored in these numbers. The indicated length is the total number of bases matched or mismatched over the given region between the given species (i.e., bases opposite gaps are excluded). The divergence (div.) is the level of mismatches among these bases. K is the actual substitution level calculated using the two-parameter method of Kimura (1980).

[ii] For the synonymous and nonsynonymous calculations, we used divergence in the GCG package (v 8).