PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Brassica rapa	A03	1	CH_bra_43	6	11	0.0000000730031
Brassica rapa	A03	2	CH_bra_94	6	11	0.00000114907
Brassica rapa	A03	3	CH_bra_125	6	11	0.00000209821
Malus domestica	5	1	CH_mdo_177	7	80	0.000224584
Malus domestica	5	2	CH_mdo_176	8	80	0.000117619
Solanum tuberosum	chr04	3	CH_stu_277	9	31	0.00000000822187
Solanum tuberosum	chr04	6	CH_stu_162	10	86	0.00000647267
Thellungiella parvula	ch7-4	1	CH_tpa_74	4	4	0.0000127924
Thellungiella parvula	ch7-4	2	CH_tpa_113	4	4	0.0000695947

GO term	Description	Number of clusters
GO:0004008	copper-exporting ATPase activity	1
GO:0005249	voltage-gated potassium channel activity	5
GO:0005267	potassium channel activity	3
GO:0005272	sodium channel activity	18
GO:0005375	copper ion transmembrane transporter activity	17
GO:0005385	zinc ion transmembrane transporter activity	7
GO:0005388	calcium-transporting ATPase activity	31
GO:0005432	calcium:sodium antiporter activity	5
GO:0008508	bile acid:sodium symporter activity	9
GO:0008551	cadmium-exporting ATPase activity	3
GO:0009674	potassium:sodium symporter activity	18
GO:0015079	potassium ion transmembrane transporter activity	8
GO:0015087	cobalt ion transmembrane transporter activity	2
GO:0015088	copper uptake transmembrane transporter activity	5
GO:0015093	ferrous iron transmembrane transporter activity	1
GO:0015095	magnesium ion transmembrane transporter activity	24
GO:0015099	nickel cation transmembrane transporter activity	3
GO:0015271	outward rectifier potassium channel activity	2
GO:0015369	calcium:hydrogen antiporter activity	26
GO:0015370	solute:sodium symporter activity	6
GO:0015385	sodium:hydrogen antiporter activity	8
GO:0022821	potassium ion antiporter activity	20
GO:0046915	transition metal ion transmembrane transporter activity	2

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