Human and Locust Mitochondrial Gene Order

The 13 protein-coding genes and two ribosomal RNAs of each mitochondrial genome compared in Figure 3 of Jameson et al. (2003). Rows follow circular gene order, starting at COX1, with the locust first. tRNAs are excluded. Coordinates remain those of the original RefSeq records, before rotation. Blocks reproduce the colours of the published comparison; they do not imply a reconstructed sequence of evolutionary events.

Usage

mitochondrial_gene_order

Format

A data frame with 30 rows and 9 columns:

• cluster: Species name.
• accession: Versioned RefSeq accession.
• genome_length: Complete mitochondrial genome length in base pairs.
• gene: Gene name; RNS and RNL denote the small and large rRNAs.
• product: Gene product from the RefSeq annotation.
• block: Gene block coloured in the published comparison.
• start, end: Original 1-based inclusive genomic coordinates.
• strand: Either "forward" or "complement".

Source

RefSeq NC_001712.1 and NC_012920.1, read with read_gbk().

References

Jameson D, Gibson AP, Hudelot C, Higgs PG. OGRe: a relational database for comparative analysis of mitochondrial genomes. Nucleic Acids Res. 2003;31:202-206. doi:10.1093/nar/gkg077.

Examples

# Rotate each circular genome to start at COX1
cox1 <- with(subset(mitochondrial_gene_order, gene == "COX1"),
             setNames(start, cluster))
genes <- within(mitochondrial_gene_order, {
  plot_start <- (start - cox1[cluster]) %% genome_length + 1
  plot_end <- plot_start + end - start
})
GC_chart(genes, start = "plot_start", end = "plot_end", cluster = "cluster",
         group = "block", strand = "strand") %>%
  GC_labels("gene") %>%
  GC_clusterLabel()