PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: Mapman term
Identifier: 27.3.99
Description: RNA.regulation of transcription.unclassified

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	17	CH_ath_205	8	24	0.0000019298
Arabidopsis thaliana	1	18	CH_ath_84	10	80	0.000252506
Capsella rubella	scaffold_2	17	CH_cru_67	10	19	0.000000000154505
Capsella rubella	scaffold_2	17	CH_cru_300	4	4	0.000593828
Capsella rubella	scaffold_2	18	CH_cru_27	10	19	0.000000000154505
Citrus sinensis	scaffold00025	17	CH_csi_37	7	7	0.000000000841547
Citrus sinensis	scaffold00063	17	CH_csi_218	4	4	0.000437285
Eucalyptus grandis	scaffold_5	17	CH_egr_769	4	4	0.000286261
Eucalyptus grandis	scaffold_7	17	CH_egr_636	5	6	0.0000161849
Eucalyptus grandis	scaffold_7	17	CH_egr_459	6	7	0.000000178768
Eucalyptus grandis	scaffold_7	17	CH_egr_770	4	4	0.000286261
Eucalyptus grandis	scaffold_8	17	CH_egr_224	9	11	0.00000000000116057
Eucalyptus grandis	scaffold_7	18	CH_egr_225	14	140	0.00000325787
Glycine max	Gm08	17	CH_gma_285	5	5	0.0000118295
Glycine max	Gm14	17	CH_gma_404	7	22	0.00023438
Glycine max	Gm18	17	CH_gma_253	6	8	0.00000378088
Gossypium raimondii	Chr01	17	CH_gra_214	5	5	0.00000861265
Gossypium raimondii	Chr02	17	CH_gra_86	8	8	0.000000000013849
Gossypium raimondii	Chr09	17	CH_gra_355	4	4	0.00073184
Malus domestica	2	17	CH_mdo_144	9	66	0.0000127634
Malus domestica	7	17	CH_mdo_74	6	8	0.0000000607427
Manihot esculenta	scaffold06028	17	CH_mes_211	4	4	0.000435905
Manihot esculenta	scaffold09798	17	CH_mes_94	6	8	0.00000168502
Oryza sativa ssp. japonica	11	17	CH_osa_431	5	8	0.000967818
Oryza sativa ssp. japonica	6	17	CH_osa_129	7	8	0.0000000222451
Populus trichocarpa	Chr01	17	CH_ptr_166	8	12	0.0000000119076
Populus trichocarpa	Chr03	17	CH_ptr_203	10	30	0.0000000934636
Populus trichocarpa	Chr16	17	CH_ptr_366	9	43	0.000120595
Populus trichocarpa	Chr18	17	CH_ptr_240	6	7	0.00000111313
Populus trichocarpa	Chr01	18	CH_ptr_79	10	27	0.0000000271539
Populus trichocarpa	Chr03	18	CH_ptr_82	10	30	0.0000000934636
Populus trichocarpa	Chr16	18	CH_ptr_116	10	70	0.000783759
Prunus persica	scaffold_1	17	CH_ppe_277	6	9	0.00000917318
Prunus persica	scaffold_2	17	CH_ppe_342	10	58	0.0000822605
Prunus persica	scaffold_5	17	CH_ppe_129	7	7	0.00000000141108
Prunus persica	scaffold_6	17	CH_ppe_191	6	6	0.000000112805
Prunus persica	scaffold_2	18	CH_ppe_105	10	58	0.0000822605
Prunus persica	scaffold_5	18	CH_ppe_104	11	75	0.0000793571
Solanum lycopersicum	ch01	17	CH_sly_125	8	11	0.00000000520013
Solanum lycopersicum	ch02	17	CH_sly_169	8	14	0.000000091367
Solanum lycopersicum	ch02	17	CH_sly_283	5	5	0.0000143186
Solanum lycopersicum	ch04	17	CH_sly_116	7	7	0.00000000248577
Solanum lycopersicum	ch07	17	CH_sly_282	5	5	0.0000143186
Solanum lycopersicum	ch07	17	CH_sly_341	5	6	0.0000849648
Solanum lycopersicum	ch08	17	CH_sly_281	5	5	0.0000143186
Solanum lycopersicum	ch01	18	CH_sly_87	10	58	0.000164567
Vitis vinifera	chr4	17	CH_vvi_445	5	11	0.000993103
Zea mays	5	17	CH_zma_236	5	8	0.000371558
Zea mays	9	17	CH_zma_155	8	28	0.000023441

Functional clusters experiments

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