PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: Mapman term
Identifier: 10.6.3
Description: cell wall.degradation.pectate lyases and polygalacturonases

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_3	17	CH_aly_83	3	3	0.000226151
Arabidopsis thaliana	1	17	CH_ath_118	6	8	0.00000000112009
Arabidopsis thaliana	2	17	CH_ath_286	4	6	0.0000586317
Arabidopsis thaliana	3	17	CH_ath_223	4	4	0.00000392919
Arabidopsis thaliana	1	19	CH_ath_77	4	8	0.000112218
Brassica rapa	A04	17	CH_bra_146	4	4	0.0000104651
Capsella rubella	scaffold_3	17	CH_cru_176	4	4	0.00000443152
Capsella rubella	scaffold_4	17	CH_cru_108	5	5	0.0000000155605
Citrus sinensis	scaffold00004	17	CH_csi_27	6	6	0.0000000000366409
Citrus sinensis	scaffold00011	17	CH_csi_104	4	4	0.00000303528
Citrus sinensis	scaffold00180	17	CH_csi_61	6	13	0.0000000615837
Citrus sinensis	scaffold00396	17	CH_csi_148	5	17	0.0000635304
Eucalyptus grandis	scaffold_11	17	CH_egr_376	5	5	0.00000000633831
Eucalyptus grandis	scaffold_2	17	CH_egr_100	10	12	5.9406e-20
Eucalyptus grandis	scaffold_3	17	CH_egr_841	3	3	0.000808687
Eucalyptus grandis	scaffold_3	17	CH_egr_546	4	4	0.00000227585
Eucalyptus grandis	scaffold_6	17	CH_egr_842	3	3	0.000808687
Eucalyptus grandis	scaffold_6	17	CH_egr_619	4	5	0.0000113536
Eucalyptus grandis	scaffold_8	17	CH_egr_247	6	6	0.0000000000174671
Eucalyptus grandis	scaffold_8	17	CH_egr_843	3	3	0.000808687
Eucalyptus grandis	scaffold_2	18	CH_egr_86	10	12	5.9406e-20
Gossypium raimondii	Chr09	17	CH_gra_67	7	7	0.00000000000060469
Gossypium raimondii	Chr10	17	CH_gra_29	10	10	3.47942e-20
Gossypium raimondii	Chr13	17	CH_gra_232	5	11	0.0000177548
Gossypium raimondii	Chr10	18	CH_gra_27	10	10	3.47942e-20
Malus domestica	13	17	CH_mdo_101	5	11	0.000000724251
Malus domestica	15	17	CH_mdo_236	4	11	0.000257281
Manihot esculenta	scaffold00341	17	CH_mes_181	4	8	0.000258115
Manihot esculenta	scaffold02895	17	CH_mes_67	5	6	0.0000000788755
Manihot esculenta	scaffold04269	17	CH_mes_55	5	5	0.0000000131849
Manihot esculenta	scaffold11581	17	CH_mes_113	4	4	0.00000373007
Oryza sativa ssp. japonica	7	17	CH_osa_225	4	7	0.00000416777
Populus trichocarpa	Chr02	17	CH_ptr_287	4	4	0.00000526093
Populus trichocarpa	Chr04	17	CH_ptr_279	5	10	0.00000434602
Populus trichocarpa	Chr07	17	CH_ptr_317	5	13	0.0000220116
Populus trichocarpa	Chr17	17	CH_ptr_40	12	33	2.11295e-17
Populus trichocarpa	Chr19	17	CH_ptr_206	5	6	0.000000104633
Populus trichocarpa	Chr17	18	CH_ptr_36	12	33	2.11295e-17
Prunus persica	scaffold_1	17	CH_ppe_22	17	59	8.31873e-23
Prunus persica	scaffold_1	17	CH_ppe_446	5	22	0.000843454
Prunus persica	scaffold_1	17	CH_ppe_275	4	4	0.00000833181
Prunus persica	scaffold_4	17	CH_ppe_352	4	6	0.000124155
Prunus persica	scaffold_1	18	CH_ppe_20	17	59	8.31873e-23
Ricinus communis	29596	17	CH_rco_48	6	7	0.000000000340101
Ricinus communis	29666	17	CH_rco_49	6	7	0.000000000340101
Ricinus communis	30042	17	CH_rco_6	11	11	2.17636e-23
Ricinus communis	30042	18	CH_rco_6	11	11	2.17636e-23
Solanum lycopersicum	ch04	17	CH_sly_234	4	4	0.00000307141
Solanum lycopersicum	ch05	17	CH_sly_235	4	4	0.00000307141
Solanum lycopersicum	ch11	17	CH_sly_78	6	6	0.0000000000272874
Solanum lycopersicum	ch12	17	CH_sly_146	6	12	0.0000000248307
Vitis vinifera	chr12	17	CH_vvi_82	8	13	0.000000000000344525
Vitis vinifera	chr13	17	CH_vvi_266	4	5	0.0000146572
Vitis vinifera	chr16	17	CH_vvi_440	3	3	0.000919898
Vitis vinifera	chr8	17	CH_vvi_231	4	4	0.00000293897
Vitis vinifera	chr9	17	CH_vvi_265	4	5	0.0000146572
Zea mays	6	17	CH_zma_2	14	16	9.07997e-32
Zea mays	6	18	CH_zma_2	14	16	9.07997e-32

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