Natural antisense transcripts with coding capacity in Arabidopsismay have a regulatory role that is not linked to double-stranded RNA degradation

Table 2 Homology assessment for 89 COPs families that contain 2-11 family members

Number of COPs family	Number of family members	Sense-gene-encoded proteins with a similarity E-value < 0.001	1 kb sense promoter regions with a similarity E-value < 0.001	Antisense-gene-encoded proteins with a similarity E-value < 0.001	1 kb antisense promoter regions with a similarity E-value < 0.001
1	11	11	7	2	2
2	8	8	2	0	0
3	8	8	0	0	2
4	7	7	0	0	0
5-6	7	7	2	0	0
7	6	6	2	2	0
8-9	5	5	0	0	0
10	4	4	2	0	0
11-12	4	4	0	0	0
13-14	4	4	0	2	0
15	4	4	2	2	0
16-21	3	3	0	0	0
22-72	2	2	0	0	0
73-75	2	2	2	0	0
76-77	2	2	0	2	2
78-89	2	2	0	2	0

The numbers refer to the family members that share sequence similarity of an E-value below 0.001 with at least one other family member. Among the COPs families, the homology is well conserved among sense-gene-encoded proteins, while sequence conservation is rare among antisense-gene-encoded proteins. With the exception of family 1 sense gene promoters, the homology is also poorly conserved among promoter regions of sense and antisense genes.

ISSN: 1474-760X