PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Beta vulgaris	Bvchr2.sca003	1	CH_bvu_164	4	4	0.000130422
Beta vulgaris	Bvchr2.sca003	2	CH_bvu_215	4	4	0.000154558
Beta vulgaris	Bvchr2.sca003	3	CH_bvu_273	4	4	0.000208662
Eucalyptus grandis	scaffold_7	3	CH_egr_699	5	9	0.000079113
Fragaria vesca	LG2	1	CH_fve_148	4	4	0.0000187125
Fragaria vesca	LG2	2	CH_fve_178	4	4	0.00002977
Fragaria vesca	LG2	3	CH_fve_251	4	4	0.0000507177
Manihot esculenta	scaffold03614	1	CH_mes_44	6	7	0.0000000488927
Manihot esculenta	scaffold03614	2	CH_mes_51	6	7	0.0000000774471
Manihot esculenta	scaffold03614	3	CH_mes_72	6	7	0.0000001334
Ricinus communis	30073	1	CH_rco_44	7	10	0.00000000732703
Ricinus communis	30073	2	CH_rco_53	7	10	0.0000000121822
Ricinus communis	30073	3	CH_rco_86	7	10	0.0000000188856
Ricinus communis	30073	4	CH_rco_27	10	86	0.0000692796
Ricinus communis	30073	5	CH_rco_31	10	86	0.000138217
Ricinus communis	30073	6	CH_rco_56	10	86	0.000250015

GO term	Description	Number of clusters
GO:0006148	inosine catabolic process	2
GO:0006154	adenosine catabolic process	18
GO:0006169	adenosine salvage	4
GO:0006177	GMP biosynthetic process	2
GO:0006183	GTP biosynthetic process	11
GO:0006184	GTP catabolic process	6
GO:0006200	ATP catabolic process	7
GO:0006556	S-adenosylmethionine biosynthetic process	3
GO:0006557	S-adenosylmethioninamine biosynthetic process	3
GO:0008616	queuosine biosynthetic process	8
GO:0009972	cytidine deamination	15
GO:0015969	guanosine tetraphosphate metabolic process	1
GO:0015986	ATP synthesis coupled proton transport	7
GO:0032312	regulation of ARF GTPase activity	3
GO:0032313	regulation of Rab GTPase activity	3
GO:0044205	'de novo' UMP biosynthetic process	8
GO:0046033	AMP metabolic process	4
GO:0046034	ATP metabolic process	4
GO:0070526	threonylcarbamoyladenosine biosynthetic process	2
GO:0080178	5-carbamoylmethyluridine metabolic process	2
GO:0080180	2-methylguanosine metabolic process	2
GO:2001295	malonyl-CoA biosynthetic process	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