PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Beta vulgaris	mitochondrial	1	CH_bvu_128	9	63	0.0000201753
Beta vulgaris	mitochondrial	2	CH_bvu_154	9	63	0.0000267341
Beta vulgaris	0028.scaffold00107	3	CH_bvu_183	8	37	0.0000204302
Beta vulgaris	mitochondrial	3	CH_bvu_73	12	63	0.00000000585805
Beta vulgaris	mitochondrial	4	CH_bvu_18	12	118	0.00000178337
Beta vulgaris	mitochondrial	5	CH_bvu_23	12	118	0.00000258504
Beta vulgaris	mitochondrial	6	CH_bvu_18	18	158	0.000000000069779
Beta vulgaris	mitochondrial	9	CH_bvu_10	4	6	0.000242779
Eucalyptus grandis	scaffold_5	2	CH_egr_766	4	7	0.00060159
Physcomitrella patens	scaffold_15	1	CH_ppa_32	4	4	0.0000516929
Physcomitrella patens	scaffold_15	2	CH_ppa_37	4	4	0.0000709193
Physcomitrella patens	scaffold_120	3	CH_ppa_103	4	5	0.000571037
Physcomitrella patens	scaffold_15	3	CH_ppa_50	5	8	0.0000490334
Physcomitrella patens	scaffold_89	3	CH_ppa_63	4	4	0.000114925
Physcomitrella patens	scaffold_89	9	CH_ppa_5	4	4	0.0000897703
Zea mays	mitochondrial	6	CH_zma_34	12	160	0.0000432426

GO term	Description	Number of clusters
GO:0003721	telomeric template RNA reverse transcriptase activity	4
GO:0003887	DNA-directed DNA polymerase activity	19
GO:0003896	DNA primase activity	4
GO:0003899	DNA-directed RNA polymerase activity	70
GO:0003919	FMN adenylyltransferase activity	5
GO:0003964	RNA-directed DNA polymerase activity	66
GO:0003968	RNA-directed RNA polymerase activity	47
GO:0004475	mannose-1-phosphate guanylyltransferase activity	2
GO:0004484	mRNA guanylyltransferase activity	2
GO:0004654	polyribonucleotide nucleotidyltransferase activity	13
GO:0004780	sulfate adenylyltransferase (ADP) activity	2
GO:0004781	sulfate adenylyltransferase (ATP) activity	10
GO:0008108	UDP-glucose:hexose-1-phosphate uridylyltransferase activity	2
GO:0008193	tRNA guanylyltransferase activity	12
GO:0008690	3-deoxy-manno-octulosonate cytidylyltransferase activity	4
GO:0008928	mannose-1-phosphate guanylyltransferase (GDP) activity	2
GO:0009022	tRNA nucleotidyltransferase activity	4
GO:0017103	UTP:galactose-1-phosphate uridylyltransferase activity	4
GO:0034061	DNA polymerase 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