PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Chlamydomonas reinhardtii	chromosome_14	6	CH_cre_29	22	298	0.000929641
Eucalyptus grandis	scaffold_2	6	CH_egr_234	10	28	0.00000193423
Lotus japonicus	chr2	3	CH_lja_58	7	13	0.000000914953
Medicago truncatula	chr7	1	CH_mtr_208	13	71	0.0000000483106
Medicago truncatula	chr7	2	CH_mtr_247	13	71	0.0000000652428
Medicago truncatula	chr7	3	CH_mtr_375	13	71	0.00000052713
Medicago truncatula	chr7	4	CH_mtr_98	22	277	0.0000000358158
Medicago truncatula	chr7	5	CH_mtr_108	22	277	0.000000057411
Medicago truncatula	chr7	6	CH_mtr_137	13	71	0.00000052713
Oryza sativa ssp. japonica	3	3	CH_osa_483	15	80	0.000812338
Oryza sativa ssp. japonica	3	6	CH_osa_172	16	89	0.000509537

GO term	Description	Number of clusters
GO:0004175	endopeptidase activity	17
GO:0004176	ATP-dependent peptidase activity	8
GO:0004181	metallocarboxypeptidase activity	5
GO:0004185	serine-type carboxypeptidase activity	229
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
GO:0008234	cysteine-type peptidase activity	178
GO:0008235	metalloexopeptidase activity	6
GO:0008236	serine-type peptidase activity	81
GO:0008237	metallopeptidase activity	10
GO:0008238	exopeptidase activity	14
GO:0008239	dipeptidyl-peptidase activity	6
GO:0008240	tripeptidyl-peptidase activity	2
GO:0008242	omega peptidase activity	14
GO:0016929	SUMO-specific protease activity	2
GO:0019784	NEDD8-specific protease activity	2
GO:0034722	gamma-glutamyl-peptidase activity	12
GO:0036374	glutathione hydrolase activity	1
GO:0070008	serine-type exopeptidase activity	3
GO:0070011	peptidase activity, acting on L-amino acid peptides	9

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