PLAZA 4.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brachypodium distachyon	Bd1	1	CH_bdi_231	3	3	0.000824536
Brachypodium distachyon	Bd1	2	CH_bdi_231	3	3	0.000824536
Oryza sativa ssp. indica	Chr3	1	CH_osaindica_267	3	3	0.000439314
Oryza sativa ssp. indica	Chr3	2	CH_osaindica_267	3	3	0.000439314
Populus trichocarpa	Chr03	1	CH_ptr_346	4	8	0.00045898
Populus trichocarpa	Chr03	2	CH_ptr_346	4	8	0.00045898
Setaria italica	scaffold_9	1	CH_sit_212	4	6	0.0000343531
Setaria italica	scaffold_9	2	CH_sit_212	4	6	0.0000343531
Sorghum bicolor	Chr01	3	CH_sbi_448	5	11	0.000966349
Sorghum bicolor	Chr01	4	CH_sbi_448	5	11	0.000966349
Vitis vinifera	chr5	1	CH_vvi_313	3	3	0.000985587
Vitis vinifera	chr5	2	CH_vvi_313	3	3	0.000985587
Zea mays	9	1	CH_zma_90	4	4	0.00000644352
Zea mays	9	2	CH_zma_90	4	4	0.00000644352
Zea mays	9	3	CH_zma_223	4	4	0.000339337
Zea mays	9	4	CH_zma_223	4	4	0.000339337

GO term	Description	Number of clusters
GO:0000055	ribosomal large subunit export from nucleus	14
GO:0006406	mRNA export from nucleus	2
GO:0006627	protein processing involved in protein targeting to mitochondrion	12
GO:0016560	protein import into peroxisome matrix, docking	4
GO:0016973	poly(A)+ mRNA export from nucleus	2
GO:0045036	protein targeting to chloroplast	2
GO:0045037	protein import into chloroplast stroma	10
GO:0045040	protein import into mitochondrial outer membrane	6
GO:1904216	positive regulation of protein import into chloroplast stroma	2

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
3	GO	All GO data.	2	30	80	0.001	X
5	InterPro	No filter applied.	2	30	80	0.001	X
6	InterPro	No filter applied.	2	30	80	0.001	V
2	GO	Primary GO data only.	2	30	80	0.001	V
1	GO	Primary GO data only.	2	30	80	0.001	X
4	GO	All GO data.	2	30	80	0.001	V