Asamizu E, Nakamura Y, Sato S, Tabata S
A large scale analysis of cDNA in Arabidopsis thaliana: Generation of 12,028 non-redundant expressed sequence tags from normalized and size-selected cDNA libraries
DNA Research, 7, 175-180 (2000)
Figures and Tables
Table 1 Number of 5'-end and 3'-end ESTs generated from cDNA libraries of five different tissues.
Tissue Library type Number of
5' end ESTs
3' end ESTs
Aboveground organs Normalized 4996 6863 Size-selected 2172 1753 Flower buds Normalized ND 5827 Roots Normalized 5798 8505 Size-selected 245 3161 Green siliques Normalized ND 11843 Size-selected ND 909 Liquid-cultured seedlings Normalized 815 346 Total 14026 39207 ND: Not determined
Table 2 Classification of 3'-end ESTs by similarity search against the non-redundant protein database.
a) showed similarity to genes of known function,
Similarity Number of
Genes of known functiona) 24892 4816 Hypothetical genesb) 5071 1864 No similarityc) 9244 5348 Total 39207 12028
b) showed similarity to hypothetical genes that have no definition of function,
c) showed no similarity
Table 3 Classification of the non-redundant EST groups with similarity to known protein genes by their functional categories
Functional categories Number of non-
Energy metabolism 538 Regulatory functions 483 Cellular structure, organization and biogenesis 416 Protein fate 369 Signal transduction 360 Protein synthesis 328 Transport and binding proteins 319 Cellular processes 218 Secondary metabolism 209 Growth and development 184 Fatty acid and phospholipid metabolism 132 Amino-acid biosynthesis 125 Environmental response 113 Pathogen responses 99 DNA metabolism 89 General transcription 76 Purines, pyrimidines, nucleosides, and nucleotides 68 Central intermediary metabolism 53 Biosynthesis of cofactors, prosthetic groups, and carriers 52 Other categories 23 Unclassified 562 Total 4816
Figure 1 The proportion of EST groups identified only in one of the five tissues and those identified in two to five tissues. The proportion of each category are given as percentages and indicated by color codes.
Kazusa DNA Research Institute
Department of Plant Gene Research