PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR001810
Description: F-box domain

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00040	13	CH_atr_273	5	7	0.0000106732
Arabidopsis lyrata	scaffold_2	13	CH_aly_430	6	8	0.000174824
Arabidopsis lyrata	scaffold_4	13	CH_aly_304	6	6	0.00000651122
Arabidopsis lyrata	scaffold_6	13	CH_aly_89	11	13	0.0000000000039683
Arabidopsis lyrata	scaffold_6	14	CH_aly_30	11	13	0.0000000000039683
Arabidopsis lyrata	scaffold_6	14	CH_aly_44	10	32	0.0000876851
Arabidopsis thaliana	5	14	CH_ath_46	17	142	0.00014206
Brassica rapa	A01	13	CH_bra_193	6	6	0.00000207735
Brassica rapa	A04	13	CH_bra_111	7	7	0.0000000398975
Capsella rubella	scaffold_2	13	CH_cru_337	13	43	0.0000225431
Capsella rubella	scaffold_4	13	CH_cru_239	15	49	0.000000922373
Capsella rubella	scaffold_6	13	CH_cru_192	8	8	0.0000000396174
Capsella rubella	scaffold_2	14	CH_cru_48	13	43	0.0000225431
Capsella rubella	scaffold_5	14	CH_cru_32	10	10	0.0000000000434449
Carica papaya	supercontig_130	13	CH_cpa_204	6	23	0.0000844169
Citrullus lanatus	Chr1	13	CH_cla_140	6	8	0.0000000612703
Eucalyptus grandis	scaffold_1	13	CH_egr_573	6	6	0.0000000144589
Eucalyptus grandis	scaffold_5	13	CH_egr_450	8	11	0.000000000170312
Fragaria vesca	LG2	13	CH_fve_582	5	5	0.000318451
Fragaria vesca	LG3	13	CH_fve_224	9	13	0.0000000780747
Fragaria vesca	LG5	13	CH_fve_352	8	14	0.0000127095
Fragaria vesca	LG6	13	CH_fve_152	13	28	0.00000000116477
Fragaria vesca	LG6	13	CH_fve_581	5	5	0.000318451
Fragaria vesca	LG6	14	CH_fve_42	13	28	0.00000000116477
Fragaria vesca	LG6	14	CH_fve_60	21	184	0.000266959
Fragaria vesca	scf0513168	14	CH_fve_63	19	161	0.000790596
Glycine max	Gm03	13	CH_gma_687	4	4	0.000348908
Glycine max	Gm09	13	CH_gma_94	12	27	0.000000000000202583
Glycine max	Gm18	13	CH_gma_531	10	70	0.0000416437
Glycine max	Gm19	13	CH_gma_93	9	10	0.000000000000191204
Glycine max	Gm09	14	CH_gma_40	12	27	0.000000000000202583
Gossypium raimondii	Chr09	13	CH_gra_232	7	11	0.000000118599
Malus domestica	11	13	CH_mdo_240	5	6	0.00000550252
Malus domestica	14	13	CH_mdo_88	8	17	0.00000000805854
Manihot esculenta	scaffold06914	13	CH_mes_294	4	4	0.00014677
Medicago truncatula	chr1	13	CH_mtr_1224	5	6	0.000865976
Medicago truncatula	chr2	13	CH_mtr_199	20	76	0.000000000000598809
Medicago truncatula	chr3	13	CH_mtr_1144	6	10	0.000536783
Medicago truncatula	chr3	13	CH_mtr_723	9	23	0.0000112575
Medicago truncatula	chr3	13	CH_mtr_1019	6	9	0.000218188
Medicago truncatula	chr4	13	CH_mtr_842	8	19	0.0000591696
Medicago truncatula	chr7	13	CH_mtr_492	9	16	0.000000177272
Medicago truncatula	chr7	13	CH_mtr_674	14	73	0.00000501858
Medicago truncatula	chr2	14	CH_mtr_110	22	92	0.00000000000016234
Medicago truncatula	chr2	14	CH_mtr_163	11	43	0.0000199138
Medicago truncatula	chr4	14	CH_mtr_135	21	125	0.00000000154464
Medicago truncatula	chr7	14	CH_mtr_111	35	288	0.00000000000016537
Oryza sativa ssp. japonica	10	13	CH_osa_306	14	79	0.0000000914562
Oryza sativa ssp. japonica	10	13	CH_osa_99	15	38	0.0000000000000234245
Oryza sativa ssp. japonica	11	13	CH_osa_498	6	9	0.0000197154
Oryza sativa ssp. japonica	11	13	CH_osa_120	18	80	0.000000000000703946
Oryza sativa ssp. japonica	11	13	CH_osa_809	6	14	0.000667256
Oryza sativa ssp. japonica	12	13	CH_osa_263	8	12	0.000000018492
Oryza sativa ssp. japonica	4	13	CH_osa_729	7	21	0.00030644
Oryza sativa ssp. japonica	4	13	CH_osa_569	6	10	0.0000487512
Oryza sativa ssp. japonica	7	13	CH_osa_838	8	36	0.000861511
Oryza sativa ssp. japonica	7	13	CH_osa_80	18	59	0.00000000000000155269
Oryza sativa ssp. japonica	8	13	CH_osa_459	7	14	0.00000977959
Oryza sativa ssp. japonica	8	13	CH_osa_49	18	37	5.50806e-20
Oryza sativa ssp. japonica	9	13	CH_osa_489	8	23	0.0000161706
Oryza sativa ssp. japonica	10	14	CH_osa_29	33	170	3.0706e-24
Oryza sativa ssp. japonica	11	14	CH_osa_49	24	99	3.5911e-19
Oryza sativa ssp. japonica	7	14	CH_osa_60	18	59	0.00000000000000155269
Oryza sativa ssp. japonica	8	14	CH_osa_47	18	37	5.50806e-20
Populus trichocarpa	Chr01	13	CH_ptr_179	8	10	0.0000000000572592
Prunus persica	scaffold_1	13	CH_ppe_222	9	14	0.00000000134075
Prunus persica	scaffold_3	13	CH_ppe_453	5	5	0.0000172839
Prunus persica	scaffold_4	13	CH_ppe_561	6	11	0.000107436
Prunus persica	scaffold_4	13	CH_ppe_251	10	23	0.00000000978199
Prunus persica	scaffold_7	13	CH_ppe_631	9	43	0.000260205
Prunus persica	scaffold_1	14	CH_ppe_97	15	124	0.0000105391
Prunus persica	scaffold_4	14	CH_ppe_83	17	106	0.00000000649979
Prunus persica	scaffold_7	14	CH_ppe_122	10	64	0.00076209
Solanum lycopersicum	ch05	13	CH_sly_642	4	4	0.000295575
Solanum lycopersicum	ch07	13	CH_sly_643	4	4	0.000295575
Solanum lycopersicum	ch08	13	CH_sly_318	6	8	0.000000736455
Solanum lycopersicum	ch08	13	CH_sly_274	6	7	0.000000185625
Solanum lycopersicum	ch08	13	CH_sly_572	5	8	0.000153932
Solanum lycopersicum	ch09	13	CH_sly_430	5	6	0.0000167578
Solanum lycopersicum	ch08	14	CH_sly_71	11	100	0.000130021
Solanum tuberosum	chr01	13	CH_stu_577	6	6	0.00000370323
Solanum tuberosum	chr03	13	CH_stu_1081	6	10	0.000721519
Solanum tuberosum	chr07	13	CH_stu_697	6	7	0.0000254411
Solanum tuberosum	chr08	13	CH_stu_429	7	7	0.0000000801268
Solanum tuberosum	chr08	13	CH_stu_692	11	40	0.000022506
Solanum tuberosum	chr09	13	CH_stu_902	5	5	0.000170933
Solanum tuberosum	chr09	13	CH_stu_210	14	26	0.00000000000130016
Solanum tuberosum	chr09	13	CH_stu_96	24	65	5.61875e-19
Solanum tuberosum	chr12	13	CH_stu_632	11	37	0.00000883475
Solanum tuberosum	chr12	13	CH_stu_327	9	11	0.00000000197614
Solanum tuberosum	chr05	14	CH_stu_155	23	267	0.000984945
Solanum tuberosum	chr08	14	CH_stu_148	10	37	0.000164575
Solanum tuberosum	chr08	14	CH_stu_141	11	40	0.000022506
Solanum tuberosum	chr09	14	CH_stu_77	24	65	5.61875e-19
Solanum tuberosum	chr09	14	CH_stu_103	14	26	0.00000000000130016
Solanum tuberosum	chr11	14	CH_stu_145	15	96	0.000093326
Solanum tuberosum	chr12	14	CH_stu_139	11	37	0.00000883475
Thellungiella parvula	ch6-1	13	CH_tpa_310	5	9	0.00070972
Thellungiella parvula	ch7-1	13	CH_tpa_230	5	7	0.00012064
Thellungiella parvula	ch7-1	14	CH_tpa_13	14	161	0.000226996
Theobroma cacao	scaffold_10r	13	CH_tca_177	8	13	0.00000000343428
Theobroma cacao	scaffold_10r	13	CH_tca_330	11	67	0.00000201322
Theobroma cacao	scaffold_5	13	CH_tca_253	6	7	0.000000200035
Theobroma cacao	scaffold_10r	14	CH_tca_57	11	67	0.00000201322
Theobroma cacao	scaffold_10r	14	CH_tca_46	17	124	0.000000000265607
Theobroma cacao	scaffold_4	14	CH_tca_55	11	58	0.000000386581
Vitis vinifera	chr13	13	CH_vvi_352	5	7	0.00000266774
Zea mays	7	13	CH_zma_127	6	7	0.0000000370967
Zea mays	7	13	CH_zma_284	8	43	0.0000308887
Zea mays	7	14	CH_zma_25	15	280	0.000099095

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