Genome-wide identification and expression profile analysis of metal tolerance protein gene family in Eucalyptus grandis under metal stresses

Table 3 The codon usage pattern (CUP) in the EgMTPs gene of E. grandis was investigated using several genetics

Gene Name	ENC	GC3	GC2	GC	CBI	SChi2
EgMTP1.6	49.441	0.392	0.47	0.433	0.336	0.347
EgMTP1.3	53.233	0.433	0.474	0.45	0.305	0.236
EgMTP1.2	48.449	0.429	0.466	0.439	0.386	0.401
EgMTP1.1	49.133	0.404	0.473	0.43	0.369	0.417
EgMTP1.5	55.974	0.447	0.475	0.444	0.255	0.193
EgMTP1.4	50.4	0.438	0.478	0.439	0.361	0.377
EgMTP4	54.152	0.45	0.475	0.442	0.266	0.205
EqMTP11.1	59.122	0.502	0.486	0.476	0.186	0.11
EgMTP12	55.462	0.538	0.473	0.493	0.247	0.171
EgMTP2	47.68	0.406	0.523	0.46	0.395	0.496
EgMTP6	60.321	0.484	0.464	0.469	0.153	0.093
EgMTP9.2	57.278	0.487	0.449	0.453	0.204	0.141
EgMTP8.1	57.836	0.552	0.511	0.497	0.211	0.14
EgMTP9.1	58.071	0.447	0.46	0.45	0.244	0.147
EgMTP8.2	56.085	0.481	0.422	0.45	0.217	0.166
EgMTP7	60.036	0.515	0.434	0.486	0.168	0.101
EgMTP1.7	54.56	0.452	0.479	0.466	0.262	0.178
EgMTP11.2	59.731	0.489	0.466	0.468	0.208	0.137
EgMTP9.3	55.074	0.454	0.467	0.439	0.273	0.205
EgMTP5	60.262	0.516	0.521	0.508	0.174	0.089

The sequences were evaluated for GC content, GC content at the second codon positions (GC2), GC content at the third site position (GC3s), codon bias index (CBI), effective codon number (ENC), and scaled chi-square (SChi2)
ENC (demonstrating between 21- 61); GC < 0.5 (meaning no perceptible preference for GC nucleotides); GC3s < 0.5 (indicating the preference of the codons end with A/T); CBI (determining the use of synonymous codons, 0 meaning the use of synonymous codons, and 1 meaning maximum codon bias); SChi2 (showing deviation from the random use of synonymous codons)

ISSN: 1471-2229