Rice pseudomolecule-anchored cross-species DNA sequence alignments indicate regional genomic variation in expressed sequence conservation

Table 6 Representation of FAexpTRL large gene families in the 'top' and 'bottom' 10% MWs

FAexp annotation large gene family¹	Annotation type in all FAexpTRL		Annotation type in top² 10% MWs		Annotation type in bottom² 10% MWs
	No.	% (n= 17108)^3a	No.	% (n = 3057)^3b	No.	% (n = 508)^3c
Protein kinase domain containing protein, expressed	412	2.41	68	2.22	22	4.33
F-box domain containing protein, expressed	330	1.93	3	0.10	69	13.58
Leucine Rich Repeat family protein, expressed	318	1.86	20	0.65	50	9.84
pentatricopeptide, putative, expressed	264	1.54	16	0.52	1	0.20
NB-ARC domain containing protein, expressed	245	1.43	1	0.03	76	14.96
Zinc finger, C3HC4 type family protein, expressed	218	1.27	36	1.18	1	0.20
Cytochrome P450 family protein, expressed	184	1.08	22	0.72	8	1.57
RNA recognition motif family protein, expressed	117	0.68	16	0.52	0	0.00

¹Large gene family = Families > 100 FAexpTRL with identical annotations.
²MWs which are in the top/bottom 10% for both % sequence alignments and average scores.
³ n = a) total number of FAexpTRL; b) number of FAexpTRL in top 10% alignment MWs with significant alignments identified in each of the Lp_MF, Zm_MF, Zm_TA and Hv_TA (monocot) databases; c) number of FAexpTRL in bottom 10% MAWs with no significant alignments identified in any of the monocot databases.

ISSN: 1471-2164