PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Vitis vinifera	chr3	4	CH_vvi_62	10	56	0.000000184258
Vitis vinifera	chr3	5	CH_vvi_70	10	56	0.00000427423
Vitis vinifera	chr3	6	CH_vvi_102	10	56	0.0000146018

GO term	Description	Number of clusters
GO:0003883	CTP synthase activity	6
GO:0003952	NAD+ synthase (glutamine-hydrolyzing) activity	7
GO:0004019	adenylosuccinate synthase activity	2
GO:0004055	argininosuccinate synthase activity	17
GO:0004075	biotin carboxylase activity	18
GO:0004326	tetrahydrofolylpolyglutamate synthase activity	6
GO:0004329	formate-tetrahydrofolate ligase activity	6
GO:0004356	glutamate-ammonia ligase activity	8
GO:0004357	glutamate-cysteine ligase activity	7
GO:0004363	glutathione synthase activity	16
GO:0004632	phosphopantothenate--cysteine ligase activity	1
GO:0004637	phosphoribosylamine-glycine ligase activity	14
GO:0004639	phosphoribosylaminoimidazolesuccinocarboxamide synthase activity	3
GO:0004642	phosphoribosylformylglycinamidine synthase activity	1
GO:0004842	ubiquitin-protein ligase activity	15
GO:0008716	D-alanine-D-alanine ligase activity	6
GO:0008841	dihydrofolate synthase activity	2
GO:0010279	indole-3-acetic acid amido synthetase activity	3
GO:0016881	acid-amino acid ligase activity	17
GO:0016884	carbon-nitrogen ligase activity, with glutamine as amido-N-donor	57
GO:0016992	lipoate synthase activity	24
GO:0030272	5-formyltetrahydrofolate cyclo-ligase activity	3
GO:0034450	ubiquitin-ubiquitin ligase activity	3
GO:0080123	jasmonate-amino synthetase activity	3

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