PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR000767
Description: Disease resistance protein

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00085	13	CH_atr_123	6	11	0.00000000159066
Arabidopsis thaliana	1	13	CH_ath_164	8	28	0.0000000202606
Arabidopsis thaliana	1	14	CH_ath_35	10	66	0.0000000238223
Arabidopsis thaliana	1	14	CH_ath_48	10	167	0.000264507
Beta vulgaris	Bvchr2.sca002	13	CH_bvu_248	5	9	0.0000213118
Beta vulgaris	Bvchr3.sca003	13	CH_bvu_236	5	8	0.0000095195
Beta vulgaris	Bvchr4.sca016	13	CH_bvu_207	6	14	0.00000295475
Brassica rapa	A02	13	CH_bra_155	5	6	0.000000477712
Capsella rubella	scaffold_2	13	CH_cru_40	15	65	9.92365e-18
Capsella rubella	scaffold_2	13	CH_cru_104	8	17	0.0000000000762407
Capsella rubella	scaffold_2	13	CH_cru_475	4	7	0.000342538
Capsella rubella	scaffold_2	13	CH_cru_349	5	12	0.0000329394
Capsella rubella	scaffold_2	14	CH_cru_20	22	223	4.38089e-19
Carica papaya	supercontig_10	13	CH_cpa_137	5	20	0.00000282278
Carica papaya	supercontig_92	13	CH_cpa_206	3	3	0.0000846033
Citrus sinensis	scaffold00153	13	CH_csi_49	11	39	0.0000000000104431
Citrus sinensis	scaffold00269	13	CH_csi_268	4	5	0.000133877
Citrus sinensis	scaffold00153	14	CH_csi_17	11	39	0.0000000000104431
Cucumis melo	CM3.5_scaffold00003	13	CH_cme_9	20	70	4.00955e-33
Cucumis melo	CM3.5_scaffold00011	13	CH_cme_404	3	3	0.000332412
Cucumis melo	CM3.5_scaffold00031	13	CH_cme_407	4	12	0.000366229
Cucumis melo	CM3.5_scaffold00051	13	CH_cme_38	9	15	1.6793e-16
Cucumis melo	CM3.5_scaffold00003	14	CH_cme_9	20	70	4.00955e-33
Eucalyptus grandis	scaffold_1	13	CH_egr_667	9	16	0.000000153925
Eucalyptus grandis	scaffold_10	13	CH_egr_705	11	31	0.000000343189
Eucalyptus grandis	scaffold_4	13	CH_egr_903	6	7	0.0000139151
Eucalyptus grandis	scaffold_4	13	CH_egr_792	6	6	0.00000202196
Eucalyptus grandis	scaffold_5	13	CH_egr_490	9	11	0.000000000808778
Eucalyptus grandis	scaffold_5	13	CH_egr_704	9	17	0.000000321332
Eucalyptus grandis	scaffold_5	13	CH_egr_114	28	80	4.45736e-23
Eucalyptus grandis	scaffold_5	13	CH_egr_232	12	13	0.0000000000000014467
Eucalyptus grandis	scaffold_6	13	CH_egr_1202	6	10	0.000396708
Eucalyptus grandis	scaffold_7	13	CH_egr_514	12	28	0.00000000257874
Eucalyptus grandis	scaffold_8	13	CH_egr_1207	8	24	0.000432238
Eucalyptus grandis	scaffold_8	13	CH_egr_851	9	22	0.00000601652
Eucalyptus grandis	scaffold_10	14	CH_egr_233	11	31	0.000000343189
Eucalyptus grandis	scaffold_5	14	CH_egr_151	12	13	0.0000000000000014467
Eucalyptus grandis	scaffold_5	14	CH_egr_64	41	160	4.25788e-29
Eucalyptus grandis	scaffold_7	14	CH_egr_217	30	294	0.00000000990063
Eucalyptus grandis	scaffold_8	14	CH_egr_143	36	245	2.52532e-16
Fragaria vesca	LG3	13	CH_fve_334	5	9	0.00000782928
Fragaria vesca	scf0513178	13	CH_fve_125	7	10	0.000000000145934
Glycine max	Gm03	13	CH_gma_60	16	56	1.52722e-16
Glycine max	Gm03	13	CH_gma_504	5	7	0.0000274655
Glycine max	Gm07	13	CH_gma_509	7	25	0.0000316866
Glycine max	Gm13	13	CH_gma_77	16	69	0.00000000000000641346
Glycine max	Gm14	13	CH_gma_462	7	22	0.0000114651
Glycine max	Gm15	13	CH_gma_47	14	29	6.31216e-18
Glycine max	Gm17	13	CH_gma_389	6	10	0.00000203099
Glycine max	Gm15	14	CH_gma_29	14	29	6.31216e-18
Glycine max	Gm18	14	CH_gma_70	10	75	0.0000163043
Gossypium raimondii	Chr02	13	CH_gra_251	8	25	0.000000286422
Gossypium raimondii	Chr07	13	CH_gra_266	6	9	0.00000046957
Gossypium raimondii	Chr07	13	CH_gra_32	20	56	2.59782e-24
Gossypium raimondii	Chr09	13	CH_gra_104	14	59	0.000000000000372303
Gossypium raimondii	Chr11	13	CH_gra_254	11	75	0.000000345718
Gossypium raimondii	Chr13	13	CH_gra_425	5	9	0.000096736
Gossypium raimondii	Chr03	14	CH_gra_59	10	22	0.00000000000902255
Gossypium raimondii	Chr09	14	CH_gra_56	14	59	0.000000000000372303
Malus domestica	2	13	CH_mdo_194	7	17	0.00000119736
Manihot esculenta	scaffold06908	13	CH_mes_196	4	4	0.0000113424
Medicago truncatula	chr3	13	CH_mtr_436	9	22	0.0000000515974
Medicago truncatula	chr3	13	CH_mtr_819	9	42	0.000038185
Medicago truncatula	chr3	13	CH_mtr_500	13	79	0.000000202847
Medicago truncatula	chr3	13	CH_mtr_722	7	16	0.0000109498
Medicago truncatula	chr4	13	CH_mtr_1112	6	15	0.000450703
Medicago truncatula	chr5	13	CH_mtr_698	11	65	0.00000697633
Medicago truncatula	chr6	13	CH_mtr_1203	6	16	0.000714543
Medicago truncatula	chr6	13	CH_mtr_1032	6	14	0.000272913
Medicago truncatula	chr6	13	CH_mtr_586	12	72	0.00000118994
Medicago truncatula	chr8	13	CH_mtr_832	9	43	0.0000478326
Medicago truncatula	chr8	13	CH_mtr_365	14	77	0.00000000699118
Medicago truncatula	chr3	14	CH_mtr_147	18	179	0.0000000870647
Medicago truncatula	chr3	14	CH_mtr_82	31	294	1.69809e-16
Medicago truncatula	chr3	14	CH_mtr_94	30	300	0.00000000000000341795
Medicago truncatula	chr8	14	CH_mtr_124	16	87	0.000000000100373
Oryza sativa ssp. japonica	11	13	CH_osa_152	10	23	0.0000000000180678
Oryza sativa ssp. japonica	12	13	CH_osa_719	6	20	0.000253929
Oryza sativa ssp. japonica	8	13	CH_osa_767	7	37	0.000428976
Physcomitrella patens	scaffold_1	13	CH_ppa_11	5	8	0.0000000305215
Physcomitrella patens	scaffold_1	15	CH_ppa_18	3	6	0.000856091
Populus trichocarpa	Chr03	13	CH_ptr_217	11	31	0.00000000151604
Populus trichocarpa	Chr04	13	CH_ptr_493	6	10	0.0000212229
Populus trichocarpa	Chr05	13	CH_ptr_715	5	8	0.000489834
Populus trichocarpa	Chr05	13	CH_ptr_749	9	55	0.000649821
Populus trichocarpa	Chr06	13	CH_ptr_563	10	60	0.0000852018
Populus trichocarpa	Chr17	13	CH_ptr_418	6	8	0.00000288724
Populus trichocarpa	scaffold_30	13	CH_ptr_27	24	44	1.69353e-30
Populus trichocarpa	Chr03	14	CH_ptr_89	11	31	0.00000000151604
Populus trichocarpa	Chr05	14	CH_ptr_102	14	127	0.0000154992
Populus trichocarpa	Chr06	14	CH_ptr_105	10	60	0.0000852018
Populus trichocarpa	scaffold_30	14	CH_ptr_28	24	44	1.69353e-30
Populus trichocarpa	scaffold_47	14	CH_ptr_93	10	30	0.0000000466115
Prunus persica	scaffold_1	13	CH_ppe_629	11	79	0.000247254
Prunus persica	scaffold_5	13	CH_ppe_320	7	10	0.000000241269
Prunus persica	scaffold_8	13	CH_ppe_442	5	5	0.0000118634
Prunus persica	scaffold_8	13	CH_ppe_56	22	77	5.19041e-19
Prunus persica	scaffold_2	14	CH_ppe_60	29	251	0.0000000000000208671
Prunus persica	scaffold_3	14	CH_ppe_96	15	129	0.00000659645
Prunus persica	scaffold_7	14	CH_ppe_84	23	242	0.0000000076899
Prunus persica	scaffold_8	14	CH_ppe_38	39	290	6.86892e-23
Ricinus communis	29577	13	CH_rco_330	5	15	0.000184896
Ricinus communis	29666	13	CH_rco_171	5	6	0.000000383335
Ricinus communis	30131	13	CH_rco_326	6	29	0.000134571
Solanum lycopersicum	ch04	13	CH_sly_573	4	5	0.000154783
Solanum lycopersicum	ch06	13	CH_sly_567	7	43	0.000130728
Solanum lycopersicum	ch05	14	CH_sly_69	12	207	0.0000700806
Solanum tuberosum	chr08	13	CH_stu_217	11	20	0.00000000000263934
Solanum tuberosum	chr10	13	CH_stu_1004	5	8	0.000408798
Solanum tuberosum	chr08	14	CH_stu_105	11	20	0.00000000000263934
Solanum tuberosum	chr12	14	CH_stu_147	12	105	0.000143919
Theobroma cacao	scaffold_1	13	CH_tca_151	7	8	0.000000000437455
Theobroma cacao	scaffold_10r	13	CH_tca_300	5	5	0.000000907332
Theobroma cacao	scaffold_10r	13	CH_tca_169	7	9	0.00000000195515
Theobroma cacao	scaffold_3	13	CH_tca_339	6	11	0.00000316436
Theobroma cacao	scaffold_6	13	CH_tca_172	13	80	0.00000000217473
Theobroma cacao	scaffold_7	13	CH_tca_379	7	22	0.0000121012
Theobroma cacao	scaffold_1	14	CH_tca_70	10	99	0.000210573
Theobroma cacao	scaffold_6	14	CH_tca_39	16	89	0.000000000000488379
Vitis vinifera	chr13	13	CH_vvi_399	5	6	0.0000125873
Vitis vinifera	chr13_random	13	CH_vvi_697	9	73	0.000928806
Vitis vinifera	chr14	13	CH_vvi_366	8	28	0.00000462302
Vitis vinifera	chr9	13	CH_vvi_432	5	7	0.0000437075

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