Fig 1.
Chloroplast genome map of Scrophularia dentata.
Genes drawn inside the circle are transcribed clockwise, and those outside are counterclockwise. Genes belonging to different functional groups are shown in different colors. The asterisks indicate genes which contain intron(s).
Table 1.
Genes present within Scrophularia dentata chloroplast genome.
Table 2.
Genes with introns within Scrophularia dentata chloroplast genome and the length of exons and introns.
Table 3.
Comparison of the base composition of six Lamiales chloroplast genomes.
Fig 2.
Sequence alignment of six chloroplast genomes in the Lamiales order using mVISTA program with S. dentata as reference.
The top line shows genes in order (transcriptional direction indicated with arrow). A cut-off of 70% identity was used for the plots, and the Y-scale represents the percent identity between 50–100%. Genome regions are color-coded as exon, intron, and conserved non-coding sequences (CNS).
Fig 3.
Percentages of variable sites in homologous regions across the six Lamiales chloroplast genomes.
(A) coding regions; (B) introns and intergenic spacers (non-coding regions).
Fig 4.
Comparison of the borders of LSC, SSC and IR regions in six Lamiales chloroplast genomes.
Ψ indicates a pseudogene. This figure is not to scale.
Fig 5.
Repeat sequences and simple sequence repeats (SSRs) within Scrophularia dentata and Scrophularia takesimensis chloroplast genomes.
(A) number of different types of repeats. F = forward repeats; P = palindrome repeats; C = complement repeats; R = reverse repeats. (B) distribution of repeats. (C) number of different types of SSRs. (D) distribution of SSRs. CDS = coding sequence; IGS = intergenic spacer; CDS-IGS = part in CDS and part in IGS.
Table 4.
Repeat sequences and their distribution within Scrophularia dentata chloroplast genome.
Table 5.
Simple sequence repeats within Scrophularia dentata chloroplast genome.