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

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

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
  1. 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.