Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture

Table 1 Classification and array detection of rice chromosome 10 gene models

Annotation	Nonredundant protein-coding gene model				TE
	Type	Annotated	Detected	Percentage
BGI indica	CG	821	784	95.5%
	EG	328	290	88.4%
	UG	1,660	1,354	81.6%
	Total	2,809	2,428	86.4%	574
BGI japonica	CG	943	879	93.2%
	EG	272	238	87.5%
	UG	1,549	1,202	77.6%
	Total	2,764	2,319	83.9%	851
TIGR japonica	CG	935	871	93.2%
	EG	321	291	90.7%
	UG	1,763	1,310	74.3%
	Total	3,019	2,472	81.9%	829

Rice chromosome 10 protein-coding gene models were divided into TE and nonredundant models based on available annotations. Because of their repetitiveness, expression of TE models was not assessed. The nonredundant models were further divided into CG, EG and UG models based on their alignment to rice full-length cDNAs and ESTs and their expression assessed by tiling microarray analysis.

ISSN: 1474-760X