PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR005202
Description: Transcription factor GRAS

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00045	13	CH_atr_61	6	6	0.000000000000364152
Amborella trichopoda	scaffold00166	13	CH_atr_255	4	7	0.0000057815
Amborella trichopoda	scaffold00045	15	CH_atr_13	3	4	0.000204309
Beta vulgaris	Bvchr7.sca021	13	CH_bvu_27	7	9	7.94796e-16
Carica papaya	supercontig_81	13	CH_cpa_26	6	6	0.000000000000633386
Citrus sinensis	scaffold00014	13	CH_csi_119	4	4	0.000000383377
Eucalyptus grandis	scaffold_1	13	CH_egr_813	5	13	0.00000341926
Eucalyptus grandis	scaffold_10	13	CH_egr_518	5	5	0.00000000269863
Eucalyptus grandis	scaffold_11	13	CH_egr_308	7	8	0.000000000000113335
Eucalyptus grandis	scaffold_2	13	CH_egr_35	16	20	6.20805e-35
Eucalyptus grandis	scaffold_7	13	CH_egr_1222	3	3	0.000487916
Eucalyptus grandis	scaffold_2	14	CH_egr_36	16	20	6.20805e-35
Fragaria vesca	LG3	13	CH_fve_14	13	22	1.01198e-27
Fragaria vesca	LG5	13	CH_fve_478	3	3	0.000118861
Fragaria vesca	LG3	14	CH_fve_14	13	22	1.01198e-27
Fragaria vesca	LG3	15	CH_fve_1	11	22	2.15301e-22
Fragaria vesca	LG3	16	CH_fve_1	11	22	2.15301e-22
Glycine max	Gm11	13	CH_gma_53	8	8	2.3461e-17
Glycine max	Gm12	13	CH_gma_373	4	4	0.00000120674
Glycine max	Gm13	13	CH_gma_211	5	5	0.00000000256748
Glycine max	Gm15	13	CH_gma_436	4	5	0.00000602331
Gossypium raimondii	Chr03	13	CH_gra_530	3	3	0.000351815
Gossypium raimondii	Chr05	15	CH_gra_3	4	12	0.00020531
Malus domestica	11	13	CH_mdo_34	7	15	0.0000000000140453
Malus domestica	3	13	CH_mdo_118	5	9	0.0000000961366
Malus domestica	3	13	CH_mdo_243	4	6	0.00000663113
Malus domestica	3	15	CH_mdo_1	5	9	0.000000027639
Manihot esculenta	scaffold01945	13	CH_mes_102	5	8	0.000000117884
Manihot esculenta	scaffold06916	13	CH_mes_140	4	4	0.000000874944
Manihot esculenta	scaffold07991	13	CH_mes_139	4	4	0.000000874944
Medicago truncatula	chr2	13	CH_mtr_846	3	3	0.0000646034
Medicago truncatula	chr2	13	CH_mtr_123	8	17	0.00000000000000111716
Medicago truncatula	chr4	13	CH_mtr_368	5	9	0.00000000745798
Oryza sativa ssp. japonica	11	13	CH_osa_167	5	5	0.000000000066406
Populus trichocarpa	Chr01	13	CH_ptr_239	5	5	0.0000000040395
Populus trichocarpa	Chr09	13	CH_ptr_303	5	7	0.0000000844805
Populus trichocarpa	Chr10	13	CH_ptr_277	5	6	0.0000000241871
Populus trichocarpa	Chr16	13	CH_ptr_366	6	21	0.000000518397
Populus trichocarpa	Chr17	13	CH_ptr_712	5	29	0.000456571
Populus trichocarpa	Chr16	15	CH_ptr_20	4	16	0.000850306
Prunus persica	scaffold_6	13	CH_ppe_58	8	8	8.31926e-19
Ricinus communis	29889	13	CH_rco_191	4	5	0.00000104715
Solanum tuberosum	chr10	13	CH_stu_1077	3	4	0.00066467
Theobroma cacao	scaffold_9	13	CH_tca_164	5	6	0.00000000133088
Vitis vinifera	chr13	13	CH_vvi_259	4	4	0.000000157528
Vitis vinifera	chr6	13	CH_vvi_311	4	5	0.000000786686
Zea mays	4	13	CH_zma_48	6	6	0.00000000000340419
Zea mays	4	14	CH_zma_20	10	82	0.0000000000974149

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