PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR000157
Description: Toll/interleukin-1 receptor homology (TIR) domain

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00010	13	CH_atr_384	3	6	0.000213296
Arabidopsis lyrata	scaffold_1	13	CH_aly_333	4	4	0.0000170154
Arabidopsis lyrata	scaffold_2	13	CH_aly_70	9	14	0.0000000000000743195
Arabidopsis lyrata	scaffold_8	13	CH_aly_2	30	80	4.57939e-45
Arabidopsis lyrata	scaffold_8	14	CH_aly_1	38	111	1.59866e-56
Arabidopsis lyrata	scaffold_8	15	CH_aly_10	7	41	0.000000714972
Arabidopsis lyrata	scaffold_8	16	CH_aly_2	14	249	0.000000000338525
Arabidopsis thaliana	1	13	CH_ath_270	6	18	0.00000280926
Arabidopsis thaliana	1	13	CH_ath_28	11	14	5.31813e-20
Arabidopsis thaliana	5	13	CH_ath_17	17	50	3.69485e-24
Arabidopsis thaliana	1	14	CH_ath_20	11	14	5.31813e-20
Arabidopsis thaliana	5	14	CH_ath_14	17	50	3.69485e-24
Brassica rapa	A02	13	CH_bra_78	6	7	0.00000000107987
Brassica rapa	A02	13	CH_bra_468	4	8	0.000700507
Brassica rapa	A02	13	CH_bra_186	9	79	0.00000142403
Brassica rapa	A07	13	CH_bra_308	4	5	0.0000505136
Brassica rapa	A07	13	CH_bra_233	4	4	0.0000101348
Brassica rapa	A09	13	CH_bra_117	7	20	0.0000000444418
Brassica rapa	A09	13	CH_bra_307	4	5	0.0000505136
Brassica rapa	A09	13	CH_bra_64	8	19	0.000000000167738
Brassica rapa	A02	14	CH_bra_20	11	119	0.0000000914597
Brassica rapa	A09	14	CH_bra_22	10	140	0.0000122358
Capsella rubella	scaffold_4	13	CH_cru_98	8	19	0.000000000042283
Capsella rubella	scaffold_5	13	CH_cru_22	13	27	4.00049e-21
Capsella rubella	scaffold_7	13	CH_cru_335	4	5	0.0000211746
Capsella rubella	scaffold_8	13	CH_cru_10	20	56	3.35134e-31
Capsella rubella	scaffold_5	14	CH_cru_17	13	27	4.00049e-21
Capsella rubella	scaffold_8	14	CH_cru_10	20	56	3.35134e-31
Carica papaya	supercontig_2	13	CH_cpa_126	3	3	0.00000118761
Citrullus lanatus	Chr2	13	CH_cla_102	5	10	0.00000000153379
Citrullus lanatus	Chr8	13	CH_cla_18	9	16	7.48607e-21
Eucalyptus grandis	scaffold_4	13	CH_egr_1059	5	7	0.000126989
Eucalyptus grandis	scaffold_5	13	CH_egr_761	10	42	0.00000110778
Eucalyptus grandis	scaffold_5	13	CH_egr_43	29	72	3.06347e-33
Eucalyptus grandis	scaffold_5	13	CH_egr_353	16	70	0.00000000000253343
Eucalyptus grandis	scaffold_8	13	CH_egr_30	30	62	1.4118e-37
Eucalyptus grandis	scaffold_8	13	CH_egr_454	15	75	0.000000000202273
Eucalyptus grandis	scaffold_8	13	CH_egr_138	22	77	1.61069e-20
Eucalyptus grandis	scaffold_3	14	CH_egr_255	15	164	0.0000234994
Eucalyptus grandis	scaffold_5	14	CH_egr_21	38	114	6.8015e-41
Eucalyptus grandis	scaffold_8	14	CH_egr_11	61	296	6.65698e-54
Eucalyptus grandis	scaffold_8	14	CH_egr_189	18	104	0.00000000000572786
Fragaria vesca	LG1	13	CH_fve_348	5	9	0.0000111159
Fragaria vesca	LG3	13	CH_fve_88	8	12	0.00000000000462091
Fragaria vesca	LG6	13	CH_fve_370	4	4	0.0000187125
Fragaria vesca	scf0513167	13	CH_fve_347	6	19	0.00001098
Fragaria vesca	scf0513178	13	CH_fve_286	9	65	0.00000111959
Fragaria vesca	LG3	14	CH_fve_35	16	170	0.0000000000105154
Fragaria vesca	LG3	15	CH_fve_9	5	12	0.00000625303
Fragaria vesca	LG3	16	CH_fve_2	10	167	0.00000354616
Glycine max	Gm02	13	CH_gma_273	5	5	0.0000000467109
Glycine max	Gm06	13	CH_gma_39	16	73	3.81013e-19
Glycine max	Gm08	13	CH_gma_465	4	4	0.000012197
Glycine max	Gm16	13	CH_gma_274	7	20	0.0000000501294
Glycine max	Gm16	13	CH_gma_20	18	51	2.83709e-26
Glycine max	Gm16	13	CH_gma_366	5	7	0.000000974673
Glycine max	Gm16	13	CH_gma_75	10	19	0.00000000000000320537
Glycine max	Gm06	14	CH_gma_20	21	94	1.89862e-26
Glycine max	Gm16	14	CH_gma_34	10	19	0.00000000000000320537
Glycine max	Gm16	14	CH_gma_22	18	51	2.83709e-26
Gossypium raimondii	Chr03	13	CH_gra_115	7	22	0.00000000000475167
Gossypium raimondii	Chr05	13	CH_gra_448	3	4	0.000156418
Malus domestica	1	13	CH_mdo_180	6	16	0.00000104314
Malus domestica	15	13	CH_mdo_81	9	44	0.00000000435641
Manihot esculenta	scaffold00097	13	CH_mes_45	6	11	0.0000000000236047
Manihot esculenta	scaffold11897	13	CH_mes_193	4	10	0.00000940268
Medicago truncatula	chr3	13	CH_mtr_620	5	6	0.00000205559
Medicago truncatula	chr4	13	CH_mtr_86	16	57	1.96281e-18
Medicago truncatula	chr4	13	CH_mtr_566	6	11	0.000000855224
Medicago truncatula	chr5	13	CH_mtr_522	6	10	0.000000390582
Medicago truncatula	chr5	13	CH_mtr_107	14	42	6.65766e-17
Medicago truncatula	chr6	13	CH_mtr_145	15	78	0.00000000000000705978
Medicago truncatula	chr6	13	CH_mtr_504	8	29	0.000000220864
Medicago truncatula	chr6	13	CH_mtr_41	21	62	2.63194e-27
Medicago truncatula	chr6	13	CH_mtr_146	15	73	0.00000000000000706032
Medicago truncatula	chr6	13	CH_mtr_65	19	74	1.0206e-21
Medicago truncatula	chr6	13	CH_mtr_262	13	80	0.0000000000606417
Medicago truncatula	chr8	13	CH_mtr_738	6	16	0.0000144773
Medicago truncatula	chr8	13	CH_mtr_565	6	11	0.000000855224
Medicago truncatula	chr8	13	CH_mtr_420	8	24	0.0000000387799
Medicago truncatula	chr8	13	CH_mtr_539	7	19	0.000000495062
Medicago truncatula	chr4	14	CH_mtr_74	16	57	1.96281e-18
Medicago truncatula	chr4	14	CH_mtr_141	12	95	0.0000000179863
Medicago truncatula	chr5	14	CH_mtr_80	14	42	6.65766e-17
Medicago truncatula	chr6	14	CH_mtr_154	16	293	0.000000956638
Medicago truncatula	chr6	14	CH_mtr_42	32	273	2.01273e-27
Medicago truncatula	chr6	14	CH_mtr_16	44	300	1.25188e-43
Medicago truncatula	chr6	14	CH_mtr_43	21	62	2.63194e-27
Medicago truncatula	chr6	14	CH_mtr_165	10	101	0.0000207473
Medicago truncatula	chr8	14	CH_mtr_92	22	240	0.00000000000000234964
Populus trichocarpa	Chr05	13	CH_ptr_227	6	7	0.00000000230878
Populus trichocarpa	Chr11	13	CH_ptr_32	21	70	2.64864e-28
Populus trichocarpa	Chr13	13	CH_ptr_87	11	22	3.51611e-16
Populus trichocarpa	Chr14	13	CH_ptr_134	9	17	0.000000000000656798
Populus trichocarpa	Chr17	13	CH_ptr_51	14	29	2.93986e-21
Populus trichocarpa	Chr19	13	CH_ptr_99	11	26	0.00000000000000379047
Populus trichocarpa	Chr19	13	CH_ptr_503	6	23	0.0000313266
Populus trichocarpa	scaffold_38	13	CH_ptr_78	12	26	2.03773e-17
Populus trichocarpa	scaffold_47	13	CH_ptr_195	9	29	0.000000000178709
Populus trichocarpa	scaffold_73	13	CH_ptr_323	7	21	0.000000160761
Populus trichocarpa	Chr11	14	CH_ptr_33	21	70	2.64864e-28
Populus trichocarpa	Chr13	14	CH_ptr_69	11	22	3.51611e-16
Populus trichocarpa	Chr17	14	CH_ptr_50	14	29	2.93986e-21
Populus trichocarpa	Chr19	14	CH_ptr_73	11	26	0.00000000000000379047
Populus trichocarpa	scaffold_38	14	CH_ptr_63	12	26	2.03773e-17
Prunus persica	scaffold_1	13	CH_ppe_200	12	69	0.000000000340777
Prunus persica	scaffold_7	13	CH_ppe_140	10	24	0.0000000000028812
Prunus persica	scaffold_8	13	CH_ppe_277	9	39	0.0000000493093
Prunus persica	scaffold_8	13	CH_ppe_158	11	40	0.0000000000180901
Prunus persica	scaffold_8	13	CH_ppe_82	15	58	2.24941e-16
Prunus persica	scaffold_1	14	CH_ppe_66	16	133	0.00000000000512091
Prunus persica	scaffold_7	14	CH_ppe_65	10	24	0.0000000000028812
Prunus persica	scaffold_8	14	CH_ppe_109	14	274	0.0000467155
Prunus persica	scaffold_8	14	CH_ppe_52	19	126	8.09766e-17
Ricinus communis	29910	13	CH_rco_162	6	28	0.000000287702
Solanum lycopersicum	ch01	13	CH_sly_389	4	9	0.00000584801
Solanum lycopersicum	ch12	13	CH_sly_537	4	15	0.0000630379
Solanum tuberosum	chr01	13	CH_stu_346	7	21	0.00000000388158
Solanum tuberosum	chr05	13	CH_stu_1080	3	3	0.000716841
Solanum tuberosum	chr06	13	CH_stu_706	4	6	0.0000286498
Solanum tuberosum	chr11	13	CH_stu_199	9	26	0.000000000000672464
Solanum tuberosum	chr12	13	CH_stu_77	13	31	1.63016e-21
Solanum tuberosum	chr11	14	CH_stu_110	10	60	0.0000000000377047
Solanum tuberosum	chr12	14	CH_stu_67	13	31	1.63016e-21
Thellungiella parvula	ch1-1	13	CH_tpa_281	3	3	0.000453823
Thellungiella parvula	ch2-4	13	CH_tpa_3	15	48	1.13649e-23
Thellungiella parvula	ch5-6	13	CH_tpa_157	4	5	0.00000575906
Thellungiella parvula	ch2-4	14	CH_tpa_3	15	48	1.13649e-23
Theobroma cacao	scaffold_4	13	CH_tca_191	4	4	0.00000000841691
Theobroma cacao	scaffold_5	13	CH_tca_118	6	16	0.0000000000266464
Vitis vinifera	chr18	13	CH_vvi_585	5	60	0.000346265
Vitis vinifera	chr18	14	CH_vvi_62	11	221	0.0000000000648551

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