PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR003340
Description: B3 DNA binding domain

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_7	13	CH_aly_116	7	12	0.000000000231454
Arabidopsis lyrata	scaffold_7	13	CH_aly_593	4	9	0.000770081
Arabidopsis lyrata	scaffold_7	14	CH_aly_45	10	205	0.000203531
Arabidopsis thaliana	4	13	CH_ath_32	9	10	9.50133e-18
Arabidopsis thaliana	4	14	CH_ath_28	10	48	0.0000000000167277
Beta vulgaris	Bvchr2_un.sca002	13	CH_bvu_417	3	3	0.000309115
Beta vulgaris	Bvchr9.sca026	13	CH_bvu_416	3	3	0.000309115
Brassica rapa	A01	13	CH_bra_129	5	5	0.0000000777713
Brassica rapa	A04	13	CH_bra_68	6	6	0.000000000347357
Capsella rubella	scaffold_7	13	CH_cru_73	8	11	0.00000000000017045
Capsella rubella	scaffold_7	14	CH_cru_50	10	172	0.0000376151
Citrullus lanatus	Chr1	13	CH_cla_345	3	3	0.00024016
Citrullus lanatus	Chr2	13	CH_cla_168	4	4	0.000000500844
Citrus sinensis	scaffold00109	13	CH_csi_331	3	3	0.000419013
Citrus sinensis	scaffold00167	13	CH_csi_22	9	13	9.90673e-17
Cucumis melo	CM3.5_scaffold00007	13	CH_cme_161	4	4	0.000000336286
Cucumis melo	CM3.5_scaffold00045	13	CH_cme_252	4	10	0.0000699964
Eucalyptus grandis	scaffold_4	13	CH_egr_958	4	6	0.0000379673
Eucalyptus grandis	scaffold_7	13	CH_egr_350	7	9	0.00000000000207331
Eucalyptus grandis	scaffold_7	13	CH_egr_1314	3	3	0.000879215
Eucalyptus grandis	scaffold_9	13	CH_egr_1123	4	8	0.00017636
Eucalyptus grandis	scaffold_9	13	CH_egr_326	7	8	0.00000000000046187
Eucalyptus grandis	scaffold_7	14	CH_egr_253	10	201	0.0000176489
Fragaria vesca	LG2	13	CH_fve_247	8	54	0.000000260945
Fragaria vesca	LG5	13	CH_fve_129	6	7	0.000000000218595
Fragaria vesca	LG7	13	CH_fve_475	4	7	0.000115474
Fragaria vesca	LG7	15	CH_fve_12	4	7	0.0000392075
Glycine max	Gm10	13	CH_gma_809	3	3	0.000805161
Glycine max	Gm11	13	CH_gma_386	4	4	0.00000195138
Glycine max	Gm12	13	CH_gma_810	3	3	0.000805161
Glycine max	Gm20	13	CH_gma_134	6	6	0.0000000000112015
Gossypium raimondii	Chr03	13	CH_gra_53	9	9	2.74794e-18
Gossypium raimondii	Chr08	13	CH_gra_205	5	5	0.0000000204078
Gossypium raimondii	Chr12	13	CH_gra_331	4	4	0.00000587588
Gossypium raimondii	Chr13	13	CH_gra_424	4	6	0.0000876443
Gossypium raimondii	Chr03	14	CH_gra_54	10	28	0.000000000000114025
Manihot esculenta	scaffold03235	13	CH_mes_162	4	4	0.00000295182
Manihot esculenta	scaffold06705	13	CH_mes_74	5	5	0.00000000980718
Manihot esculenta	scaffold08265	13	CH_mes_163	4	4	0.00000295182
Manihot esculenta	scaffold11584	13	CH_mes_161	4	4	0.00000295182
Medicago truncatula	chr1	13	CH_mtr_49	13	23	6.35383e-25
Medicago truncatula	chr3	13	CH_mtr_298	6	9	0.000000000419983
Medicago truncatula	chr3	13	CH_mtr_101	9	13	2.82987e-17
Medicago truncatula	chr4	13	CH_mtr_1171	3	3	0.00059185
Medicago truncatula	chr7	13	CH_mtr_745	4	6	0.0000181884
Medicago truncatula	chr1	14	CH_mtr_51	13	23	6.35383e-25
Oryza sativa ssp. japonica	12	13	CH_osa_440	4	6	0.00000521094
Oryza sativa ssp. japonica	3	13	CH_osa_107	8	19	0.000000000000134
Oryza sativa ssp. japonica	4	13	CH_osa_841	3	4	0.000896401
Oryza sativa ssp. japonica	7	13	CH_osa_471	4	7	0.0000121437
Populus trichocarpa	Chr09	13	CH_ptr_448	4	4	0.00000673137
Populus trichocarpa	Chr12	13	CH_ptr_228	6	8	0.00000000232625
Populus trichocarpa	Chr15	13	CH_ptr_96	10	19	0.00000000000000106274
Populus trichocarpa	Chr15	14	CH_ptr_72	10	19	0.00000000000000106274
Prunus persica	scaffold_1	13	CH_ppe_759	3	3	0.000915717
Prunus persica	scaffold_4	13	CH_ppe_559	4	7	0.0000997501
Prunus persica	scaffold_4	13	CH_ppe_113	7	7	0.0000000000000825957
Prunus persica	scaffold_7	13	CH_ppe_43	10	10	2.13358e-21
Prunus persica	scaffold_4	14	CH_ppe_110	11	278	0.0000475903
Prunus persica	scaffold_7	14	CH_ppe_40	10	10	2.13358e-21
Prunus persica	scaffold_4	15	CH_ppe_2	4	5	0.00000334134
Ricinus communis	29676	13	CH_rco_174	4	4	0.000000463633
Ricinus communis	30170	13	CH_rco_173	4	4	0.000000463633
Ricinus communis	30170	15	CH_rco_3	3	3	0.0000865586
Solanum lycopersicum	ch01	13	CH_sly_804	3	3	0.000873256
Solanum lycopersicum	ch01	13	CH_sly_803	3	3	0.000873256
Solanum lycopersicum	ch08	13	CH_sly_57	9	10	4.17012e-18
Solanum tuberosum	chr01	13	CH_stu_825	4	7	0.0000955805
Solanum tuberosum	chr01	13	CH_stu_910	4	8	0.000190712
Solanum tuberosum	chr01	13	CH_stu_563	4	4	0.00000275023
Solanum tuberosum	chr02	13	CH_stu_1123	3	3	0.000937961
Solanum tuberosum	chr08	13	CH_stu_25	15	17	2.63843e-32
Solanum tuberosum	chr08	14	CH_stu_26	15	17	2.63843e-32
Thellungiella parvula	ch4-2	13	CH_tpa_148	5	10	0.00000244009
Thellungiella parvula	ch7-5	13	CH_tpa_121	5	8	0.000000545171
Theobroma cacao	scaffold_1	13	CH_tca_88	7	8	0.00000000000124986
Theobroma cacao	scaffold_10r	13	CH_tca_292	5	8	0.000000787539
Vitis vinifera	chr3	13	CH_vvi_332	4	5	0.00000124018
Zea mays	1	13	CH_zma_283	4	7	0.0000282222

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