Design and Characteristics

* Both genome strands represented on the same microarray

* Probes cover the whole nuclear Arabidopsis thaliana genome (TAIR8, 81% covered, see below)

* Analysis of an additional 7,646 genes compared to the ATH1 platform

* 29,920 TAIR9 gene models are represented by at least 3 probes on the AGRONOMICS1 array (>90 % of the genes annotated in the current release)

* Unambiguous genome location of 5,894,089 oligonucleotide probes

* Mitochondrial and chloroplast genomes completely represented (99% covered)

Probes excluded:

* With more than one perfect match and ≥ 19nt length

* With imperfect match (1bp mis-match or indel) and ≥ 23nt length

* Positioned in repetitive sequences, as defined by RepeatMasker (11.7% of the genome sequence)

* Positioned in known transposable element sequences