PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	4	1	CH_ath_73	7	9	0.00000000526273
Arabidopsis thaliana	4	2	CH_ath_100	7	9	0.0000000053869
Arabidopsis thaliana	4	3	CH_ath_111	7	9	0.00000000692735
Eucalyptus grandis	scaffold_7	6	CH_egr_143	23	230	0.00000000000769373
Gossypium raimondii	Chr10	4	CH_gra_60	15	152	0.00000662923
Gossypium raimondii	Chr10	5	CH_gra_64	15	152	0.00000808744
Malus domestica	2	4	CH_mdo_14	10	66	0.000000854043
Malus domestica	2	5	CH_mdo_16	10	66	0.00000115888
Malus domestica	2	6	CH_mdo_20	11	66	0.000000297396
Medicago truncatula	chr5	5	CH_mtr_152	12	139	0.0000138957
Ricinus communis	29751	1	CH_rco_123	5	6	0.0000212894
Ricinus communis	29751	2	CH_rco_141	5	6	0.0000247575
Solanum lycopersicum	ch02	5	CH_sly_65	13	81	0.0000004591
Solanum lycopersicum	ch02	6	CH_sly_81	14	81	0.0000000682999
Solanum tuberosum	chr03	3	CH_stu_339	6	6	0.0000000990034
Solanum tuberosum	chr07	4	CH_stu_94	10	32	0.0000000321567
Solanum tuberosum	chr07	5	CH_stu_96	10	32	0.000000037615

GO term	Description	Number of clusters
GO:0004190	aspartic-type endopeptidase activity	266
GO:0004197	cysteine-type endopeptidase activity	89
GO:0004198	calcium-dependent cysteine-type endopeptidase activity	3
GO:0004222	metalloendopeptidase activity	36
GO:0004252	serine-type endopeptidase activity	132
GO:0004298	threonine-type endopeptidase activity	5

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V