PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00039	1	CH_atr_140	3	3	0.0000464769
Eucalyptus grandis	scaffold_1	6	CH_egr_150	10	77	0.0000000000394953
Malus domestica	1	1	CH_mdo_181	3	4	0.000250355
Malus domestica	1	2	CH_mdo_266	3	4	0.000507123
Malus domestica	1	3	CH_mdo_373	3	4	0.00066902

GO term	Description	Number of clusters
GO:0003855	3-dehydroquinate dehydratase activity	17
GO:0003861	3-isopropylmalate dehydratase activity	1
GO:0003994	aconitate hydratase activity	24
GO:0004089	carbonate dehydratase activity	25
GO:0004160	dihydroxy-acid dehydratase activity	5
GO:0004300	enoyl-CoA hydratase activity	4
GO:0004424	imidazoleglycerol-phosphate dehydratase activity	6
GO:0004634	phosphopyruvate hydratase activity	6
GO:0004655	porphobilinogen synthase activity	6
GO:0004664	prephenate dehydratase activity	1
GO:0004834	tryptophan synthase activity	25
GO:0004852	uroporphyrinogen-III synthase activity	3
GO:0008446	GDP-mannose 4,6-dehydratase activity	5
GO:0008840	4-hydroxy-tetrahydrodipicolinate synthase	2
GO:0009978	allene oxide synthase activity	6
GO:0016508	long-chain-enoyl-CoA hydratase activity	2
GO:0047987	hydroperoxide dehydratase activity	3
GO:0052684	L-serine hydro-lyase (adding indole, L-tryptophan-forming) activity	2
GO:0080109	indole-3-acetonitrile nitrile hydratase activity	6

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