PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00024	1	CH_atr_232	4	4	0.000985785
Amborella trichopoda	scaffold00071	6	CH_atr_75	17	164	0.000156522
Arabidopsis thaliana	1	4	CH_ath_97	13	102	0.000158921
Arabidopsis thaliana	1	4	CH_ath_100	15	144	0.000177673
Arabidopsis thaliana	1	5	CH_ath_117	15	144	0.000177673
Arabidopsis thaliana	1	6	CH_ath_147	15	144	0.000466431
Capsella rubella	scaffold_2	5	CH_cru_55	12	50	0.0000197011
Capsella rubella	scaffold_2	6	CH_cru_77	12	50	0.000029923
Prunus persica	scaffold_2	6	CH_ppe_76	10	19	0.0000000213753
Solanum tuberosum	chr01	1	CH_stu_469	8	26	0.000500637
Solanum tuberosum	chr01	2	CH_stu_560	8	26	0.000591346
Solanum tuberosum	chr05	4	CH_stu_120	16	110	0.00000672407
Solanum tuberosum	chr05	5	CH_stu_124	16	110	0.00000918999
Solanum tuberosum	chr05	6	CH_stu_151	18	111	0.00000224426
Thellungiella parvula	ch2-1	3	CH_tpa_141	11	50	0.000064485
Thellungiella parvula	ch2-1	6	CH_tpa_30	11	50	0.000064485
Theobroma cacao	scaffold_3	3	CH_tca_337	9	31	0.000187315

GO term	Description	Number of clusters
GO:0000062	fatty-acyl-CoA binding	1
GO:0010181	FMN binding	71
GO:0030170	pyridoxal phosphate binding	35
GO:0030976	thiamine pyrophosphate binding	15
GO:0043546	molybdopterin cofactor binding	9
GO:0048038	quinone binding	13
GO:0050660	flavin adenine dinucleotide binding	43
GO:0050661	NADP binding	7
GO:0050662	coenzyme binding	96
GO:0051287	NAD binding	53
GO:0070401	NADP+ binding	25
GO:0070403	NAD+ binding	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