PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR003591
Description: Leucine-rich repeat, typical subtype

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_1	13	CH_aly_334	4	4	0.0000170154
Arabidopsis lyrata	scaffold_5	13	CH_aly_195	5	5	0.0000000805805
Beta vulgaris	Bvchr9.sca026	13	CH_bvu_78	7	8	0.0000000000703662
Beta vulgaris	Bvchr9.sca026	14	CH_bvu_24	11	154	0.0001118
Brassica rapa	A02	13	CH_bra_313	4	4	0.0000747554
Brassica rapa	A04	13	CH_bra_199	5	6	0.00000290006
Brassica rapa	A04	14	CH_bra_19	13	123	0.0000000869543
Capsella rubella	scaffold_4	13	CH_cru_158	7	11	0.00000000683991
Capsella rubella	scaffold_5	13	CH_cru_473	4	5	0.000320209
Citrullus lanatus	Chr8	13	CH_cla_240	4	4	0.0000427908
Citrus sinensis	scaffold00046	13	CH_csi_147	7	14	0.00000134294
Cucumis melo	CM3.5_scaffold00001	13	CH_cme_406	4	6	0.000363432
Cucumis melo	CM3.5_scaffold00014	13	CH_cme_317	4	5	0.000121678
Eucalyptus grandis	scaffold_1	13	CH_egr_950	7	10	0.0000348593
Eucalyptus grandis	scaffold_15	13	CH_egr_682	12	30	0.0000002181
Eucalyptus grandis	scaffold_3	13	CH_egr_965	15	76	0.0000441037
Eucalyptus grandis	scaffold_3	13	CH_egr_888	7	9	0.0000107048
Eucalyptus grandis	scaffold_3	13	CH_egr_150	21	36	8.41109e-20
Eucalyptus grandis	scaffold_3	13	CH_egr_304	14	20	0.000000000000089878
Eucalyptus grandis	scaffold_4	13	CH_egr_802	12	36	0.00000272539
Eucalyptus grandis	scaffold_6	13	CH_egr_1315	6	9	0.000926154
Eucalyptus grandis	scaffold_6	13	CH_egr_298	19	46	0.0000000000000688185
Eucalyptus grandis	scaffold_7	13	CH_egr_227	18	33	8.91527e-16
Eucalyptus grandis	scaffold_8	13	CH_egr_520	16	49	0.00000000270828
Eucalyptus grandis	scaffold_15	14	CH_egr_231	12	30	0.0000002181
Eucalyptus grandis	scaffold_3	14	CH_egr_178	14	20	0.000000000000089878
Eucalyptus grandis	scaffold_3	14	CH_egr_121	21	36	8.41109e-20
Eucalyptus grandis	scaffold_4	14	CH_egr_243	12	36	0.00000272539
Eucalyptus grandis	scaffold_6	14	CH_egr_59	45	149	3.22991e-30
Eucalyptus grandis	scaffold_7	14	CH_egr_149	18	33	8.91527e-16
Eucalyptus grandis	scaffold_8	14	CH_egr_207	16	49	0.00000000270828
Fragaria vesca	LG6	13	CH_fve_473	4	4	0.000112589
Fragaria vesca	LG7	13	CH_fve_176	7	10	0.00000000562343
Glycine max	Gm10	13	CH_gma_483	6	11	0.0000188888
Glycine max	Gm16	13	CH_gma_5	30	42	8.12624e-47
Glycine max	Gm16	13	CH_gma_10	29	66	2.88471e-36
Glycine max	Gm18	13	CH_gma_543	7	22	0.0000611675
Glycine max	Gm16	14	CH_gma_1	100	255	1.57585e-129
Glycine max	Gm16	14	CH_gma_71	10	61	0.0000202886
Gossypium raimondii	Chr05	13	CH_gra_61	19	60	3.72021e-17
Gossypium raimondii	Chr07	13	CH_gra_18	26	50	1.11406e-31
Gossypium raimondii	Chr09	13	CH_gra_19	29	73	2.44901e-31
Gossypium raimondii	Chr11	13	CH_gra_95	11	15	0.0000000000000670679
Gossypium raimondii	Chr11	13	CH_gra_612	4	4	0.000999526
Gossypium raimondii	Chr11	13	CH_gra_613	4	4	0.000999526
Gossypium raimondii	Chr02	14	CH_gra_61	19	118	0.0000000000378627
Gossypium raimondii	Chr05	14	CH_gra_44	19	60	3.72021e-17
Gossypium raimondii	Chr09	14	CH_gra_21	29	73	2.44901e-31
Gossypium raimondii	Chr11	14	CH_gra_52	11	15	0.0000000000000670679
Medicago truncatula	chr2	13	CH_mtr_337	7	9	0.00000000234655
Medicago truncatula	chr3	13	CH_mtr_1018	9	73	0.000216518
Medicago truncatula	chr3	13	CH_mtr_826	8	42	0.0000448502
Medicago truncatula	chr4	13	CH_mtr_314	13	75	0.000000000718041
Medicago truncatula	chr5	13	CH_mtr_192	15	72	0.000000000000349491
Medicago truncatula	chr6	13	CH_mtr_1167	5	11	0.000571912
Medicago truncatula	chr2	14	CH_mtr_160	11	90	0.00000422872
Medicago truncatula	chr3	14	CH_mtr_133	19	235	0.00000000105983
Medicago truncatula	chr4	14	CH_mtr_56	26	144	1.04021e-23
Medicago truncatula	chr7	14	CH_mtr_121	17	138	0.0000000000224259
Medicago truncatula	chr8	14	CH_mtr_117	16	103	0.00000000000381435
Oryza sativa ssp. japonica	1	13	CH_osa_105	11	25	0.000000000000122056
Oryza sativa ssp. japonica	2	13	CH_osa_406	9	51	0.00000190015
Oryza sativa ssp. japonica	6	13	CH_osa_186	12	64	0.000000000442687
Oryza sativa ssp. japonica	1	14	CH_osa_69	11	25	0.000000000000122056
Oryza sativa ssp. japonica	6	14	CH_osa_85	12	64	0.000000000442687
Populus trichocarpa	Chr01	13	CH_ptr_414	8	21	0.00000233123
Populus trichocarpa	Chr11	13	CH_ptr_465	8	25	0.0000118922
Prunus persica	scaffold_1	13	CH_ppe_755	4	4	0.000817527
Prunus persica	scaffold_1	13	CH_ppe_754	4	4	0.000817527
Prunus persica	scaffold_4	13	CH_ppe_97	12	17	0.00000000000000362898
Prunus persica	scaffold_6	13	CH_ppe_623	5	7	0.000218583
Prunus persica	scaffold_7	13	CH_ppe_494	5	6	0.0000631371
Prunus persica	scaffold_4	14	CH_ppe_57	12	17	0.00000000000000362898
Solanum lycopersicum	ch07	13	CH_sly_357	5	6	0.00000277523
Solanum lycopersicum	ch12	13	CH_sly_204	9	28	0.00000000530705
Solanum tuberosum	chr10	13	CH_stu_1011	4	4	0.00044412
Solanum tuberosum	chr11	13	CH_stu_456	10	37	0.000000157066
Solanum tuberosum	chr12	13	CH_stu_26	22	32	4.37182e-32
Solanum tuberosum	chr11	14	CH_stu_129	10	37	0.000000157066
Solanum tuberosum	chr12	14	CH_stu_27	22	32	4.37182e-32
Theobroma cacao	scaffold_7	13	CH_tca_92	9	10	0.00000000000174209
Theobroma cacao	scaffold_7	14	CH_tca_40	14	49	0.0000000000197524
Vitis vinifera	chr14	13	CH_vvi_580	5	8	0.000296777
Vitis vinifera	chr16	13	CH_vvi_646	8	41	0.000552092
Vitis vinifera	chr18	13	CH_vvi_595	9	56	0.000428198
Vitis vinifera	chr6	13	CH_vvi_339	6	8	0.00000171218
Vitis vinifera	chr9	13	CH_vvi_295	8	19	0.000000545777
Vitis vinifera	chr9	14	CH_vvi_68	24	300	0.00000000393623

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