The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications

doi:10.1186/1741-7007-3-20

Table 4 Nucleotide substitution analysis of a subset of genes in the duplication of chromosomes 11 and 12. A high confidence gene set has been selected for the calculation of synonymous (Ks) and non-synonymous (Ka) nucleotide substitutions. The genes are presented with their Ks/Ka values according to their chromosomal positions.

From: The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications

Gene Number	gene putative function	chrom11 start	chrom11 stop	chrom12 start	chrom12 stop	Ks	se of Ks	Ka	se of Ka	my
1	WRKY family transcription factor	749015	750212	788607	789687	0.16	0.037	0.055	0.013	12.30769
2	WRKY family transcription factor	758715	762245	801426	804997	0.04	0.017	0.015	0.006	3.076923
3	WRKY family transcription factor	781473	782513	816140	817037	0.023	0.017	0.007	0.004	1.769231
4	WRKY family transcription factor	786625	787866	823302	824540	0.077	0.02	0.04	0.007	5.923077
5	alpha-hydroxynitrile lyase	811241	812335	851943	854138	0.0196	0.034	0.0118	0.007	1.507692
6	polyneuridine aldehyde esterase-like	812960	814118	855275	856433	0.025	0.0147	0.009	0.0065	1.923077
7	glycosyl hydrolase family	819185	821808	857627	859498	0.02567	0.009	0.02	0.0053	1.974615
8	scarecrow	1119113	1121579	1042889	1045809	0.0865	0.03	0.0087	0.0026	6.653846
9	glutathione S = transferase T3	1165521	1166165	1096622	1097382	0.327	0.116	0.155	0.04	25.15385
10	apyrase GS52	1174941	1177791	1106432	1109216	0.027	0.01	0.019	0.005	2.076923
11	apyrase S-type	1221864	1225463	1129908	1132441	0.084	0.04	0.027	0.016	6.461538
12	no apical meristem	1233158	1234682	1138382	1139934	0.094	0.026	0.017	0.004	7.230769
13	no apical meristem	1240175	1241314	1146147	1147453	0.32	0.15	0.073	0.0155	24.61538
14	40S robosomal protein S16	1284724	1285173	1168928	1169349	0.093	0	0.003	0	7.153846
15	exostosin family	1288082	1291244	1172080	1174695	0.098	0.02	0.0135	0.004	7.538462
16	cdc45-like protein	1305369	1307183	1188143	1189957	0.068	0.02	0.0037	0.0017	5.230769
17	myb protein homolog	1316546	1317575	1199788	1200856	0.0535	0	0.0115	0	4.115385
18	homoserine dehydrogenase-like protein	1328599	1332331	1215892	1219509	0.0339	0.01	0.01	0.0037	2.607692
19	receptor-like protein kinase	1537568	1540056	1472686	1475196	0.1	0.036	0.02	0.0054	7.692308
20	receptor-loke protein kinase	1545094	1547508	1490358	1492844	0.081	0.021	0.011	0.0027	6.230769
21	60S acidic ribosomal protein	1645643	1647855	1601129	1603328	0.071	0.019	0.0054	0.0027	5.461538
22	calcium dependent protein kinase	1691610	1693844	1647299	1649413	0.0279	0.01	0.00077	0.00078	2.146154
23	YVH 1 protein-tyrosine phosphatase	1696442	1698793	1651813	1654064	0.034	0.012	0.012	0.00436	2.615385
24	hydroxymethylglutaryl-CoA lyase	1715582	1718088	1671209	1673936	0.0757	0.016	0.022	0.0053	5.823077
25	cytochrome P450-like protein	1766039	1767592	1715187	1716737	0.176	0.039	0.0138	0.003	13.53846
26	zinc finger protein-like	1791802	1794503	1731264	1733959	0.1596	0.0386	0.0132	0.0039	12.27692
27	cell death associated protein	1802302	1804168	1744300	1746170	0.1235	0.036	0.0204	0.00572	9.5
28	steroid sulfotransferase	1911460	1912476	1836949	1837788	0.1936	0.078	0.202	0.049	14.89231
29	cyt p450 protein	1997769	2000557	1905242	1908061	0.02	0.015	0.0088	0.0006	1.538462

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ISSN: 1741-7007

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