Table 2 Characteristics of global and changed-tissues jiDE genes
Global jiDE genes. | Changed-tissues jiDE genes. | |
|---|---|---|
Detected number of jiDE genes | •Tissue independent. | •Tissue dependent. |
•More indica silent genes were detected than japonica silent genes. | •Numbers of highly expressed gene were similar between japonica and indica strains in each tissue. | |
Tissue specificity index (τ) dependence | •Independent. | •over-represented in higher τ genes. |
Gene structure | •Largely changed. | •Same as jiSE genes. |
Molecular evolution | •Free from constraints. | •Same constraints as jiSE genes. |
Distribution on the Nipponbare genome | •Some genes were clustered. | •Few genes were clustered. |
TE related genes | •Enriched. | •Same as jiSE genes. |
Enriched GO terms. | •No commonly enriched term between global and changed-tissues jiDE genes. | |
•“apoptosis”, “protein phosphorylation”, “defense response” etc. | •“response to stress”, “response to cold”, “response to hydrogen peroxide”, and etc. | |
GO enriched terms between japonica higher expressed genes and indica higher ones | •Similar terms were enriched between japonica and indica silent genes. | •Most enriched terms were different between them. |