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The primers were designed according to the annotated OsWRKY80 gene (Loc_Os03g63810) including its longest open reading frame (ORF).
Moreover, by comparing the genetic distances of mPing-SCAR markers with their physical locations (according to the annotated rice genome) (see Supplementary Table S1), we find that the genetic distances strongly correlate with physical distances, thus providing another indication of the accuracy of mPing-SCAR markers (Table 2; see Supplementary Table S1).
To construct a protein library of Arabidopsis RING proteins, we collected 274 cDNA clones from the RAFL library [ 21] according to the annotated RING proteins [ 14] and annotated genes in RAFL database [ 21].
Redundant samples were excluded according to the annotated sample origins.
According to the annotated genome sequence of S. Typhimurium LT2, the integration of SGI1 would not be predicted to affect the promoter-operator region of purR.
According to the annotated piRNA [45], miRNA [46] and the corresponding target datasets [47], five EditFunc prediction options for piRNA, miRNA target, precursor miRNA, mature miRNA and miRNA seed allow the user to detect whether the queried editing site is located at non-coding RNAs and their functional regions or not.
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An example is 'gold nanoparticles' where 'nanoparticles' is excluded by trimming and 'gold' is explicitly not to be annotated according to the annotation guidelines.
Note that in case of the abbreviations, only cases of at least 3 characters were annotated according to the annotation rules.
In contrast, Alberti et al. [11] cloned MCA1 for their study according to the currently annotated start site that is lacking the destabilizing N-terminal amino acids.
Therefore, we assembled the whole genome sequences of each accession according to the TAIR8 annotated positions.
According to the genes annotated in KEGG and the results of flower colour formation obtained in many plants [ 31, 32], 10 DEGs were selected for expression analysis (Table 3).
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