WebApr 7, 2024 · In addition, TBtools with a simple Ka/Ks(S2) calculator were applied to calculate Ka/Ks values between gene pairs. 2.5. Conserved Motifs and Gene Structure Prediction of the PAL Gene Family in Chinese Cabbage. The gff3 annotation file of Chinese cabbage was downloaded from the Brassica database ... WebApr 14, 2024 · Synteny analysis on internal CHR genes in soybean was conducted with One Step MCScanX plugin in TBtools, and visualization was performed with Advanced Circos plugin . Nonsynonymous (Ka) and synonymous (Ks) substitution rates for each Snf2 gene pair were calculated with Simple Ka/Ks Calculator in TBtools .
Identification of Alfalfa SPL gene family and expression analysis …
WebOct 14, 2024 · After BLASTn analysis of CDS sequences and obtaining duplicated gene pairs, the nonsynonymous substitution rate (Ka) and Synonymous substitution rate (Ks) of gene pairs were calculated by the “Simple Ka/Ks calculator (NG)” tool of TBtools. The divergence time was estimated with the formula: T = Ks/2 λ (Song et al., 2016). WebAug 6, 2024 · The “Simple Ka/Ks Calculator (NG)” function in TBtools (v1.09876) was used to calculate Ka, Ks, and Ka/Ks values. 4.3. Transcriptome Analysis, GCNA, and WGCNA of Brassicaceae Hormone-Related TFs. problem of other minds definition
Genome-wide identification, classification and expression …
WebWe use the online tool Plant Genome Duplication Database (link given below) and TBTool to calculate the synonymous (ka) and nonsynonymous (ks) substitution r... WebFeb 14, 2024 · The duplication pattern of the AhR2R3-MYB genes was visualized by the Amazing Super Circos package of TBtools. The Ka/Ks value was completed by the Simple Ka/Ks Calculator program of TBtools. Duplication time was calculated by the following formula as described by Bertioli et al. (2016): T = Ks/2λ (λ = 8.12 × 10 −9). WebI determined the Ka/Ks ratio for the matK gene. The MAFFT alignment showed 6 SNPs which were non-synonyms and covert six amino acid. The whole size of the matK gene … regent pharmacy isle of wight