Protein encoding genes in an ancient plant: analysis of codon usage, retained genes and splice sites in a moss, Physcomitrella patens

Table 1 Taxonomic constitution of the taxprot dataset

taxonomic group	txid	# of sequences¹
Metazoa	33208	862,420
Fungi	4751	184,282
Viridiplantae (plants and green algae)	33090	293,156
Non-green algae²		21,889
Other Eukaryotes³		49,732
Eubacteria (without Cyanobacteria)	2	1,386,089
Cyanobacteria	1117	94,920
Archaea	2157	122,394
Viruses	10239	331,246
Total		3,346,128

¹Genbank amino acid sequences as of 2004–04–07, NCBI taxon ids are shown under "txid", all taxonomic crown groups with at least 100 sequence members were used; ²Cercozoa [136419], Cryptophyta [3027], Euglenozoa [33682], Glaucocystophyceae [38254], Haptophyceae [2830], Rhodophyta [2763], Stramenopiles [33634]; ³Acanthamoebidae [33677], Alveolata [33630], Diplomonadida [207245], Entamoebidae [33084], Heterolobosea [5752], Jakobidae [143015], Mycetozoa [142796], Parabasalidea [5719]

ISSN: 1471-2164