PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0005739
Description: mitochondrion

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	scaffold00010	3	CH_atr_71	17	52	0.000000000466393
Amborella trichopoda	scaffold00010	6	CH_atr_38	17	52	0.000000000466393
Arabidopsis lyrata	scaffold_2	3	CH_aly_87	14	29	0.00000000407062
Arabidopsis lyrata	scaffold_2	6	CH_aly_26	14	29	0.00000000407062
Arabidopsis thaliana	2	1	CH_ath_124	30	72	0.000000320092
Arabidopsis thaliana	2	1	CH_ath_133	29	69	0.000000546145
Arabidopsis thaliana	mitochondrial	1	CH_ath_9	30	30	1.7605e-25
Arabidopsis thaliana	2	2	CH_ath_175	30	72	0.00000124998
Arabidopsis thaliana	2	2	CH_ath_187	29	69	0.00000204607
Arabidopsis thaliana	mitochondrial	2	CH_ath_14	30	30	8.9717e-25
Arabidopsis thaliana	2	3	CH_ath_195	30	72	0.00000180857
Arabidopsis thaliana	2	3	CH_ath_205	29	69	0.00000292746
Arabidopsis thaliana	3	3	CH_ath_311	9	9	0.000105164
Arabidopsis thaliana	mitochondrial	3	CH_ath_16	30	30	1.4e-24
Arabidopsis thaliana	2	4	CH_ath_10	48	116	0.000000000000298733
Arabidopsis thaliana	mitochondrial	4	CH_ath_3	139	140	1.31435e-130
Arabidopsis thaliana	2	5	CH_ath_21	48	116	0.00000000000262689
Arabidopsis thaliana	mitochondrial	5	CH_ath_3	139	140	2.77231e-127
Arabidopsis thaliana	2	6	CH_ath_30	48	116	0.00000000000473559
Arabidopsis thaliana	3	6	CH_ath_114	10	11	0.000117642
Arabidopsis thaliana	mitochondrial	6	CH_ath_3	139	140	2.24213e-126
Arabidopsis thaliana	2	7	CH_ath_12	30	77	0.000000248218
Arabidopsis thaliana	2	7	CH_ath_10	29	69	0.0000000573658
Arabidopsis thaliana	mitochondrial	7	CH_ath_7	30	32	3.24118e-25
Arabidopsis thaliana	mitochondrial	7	CH_ath_5	30	30	1.15299e-26
Arabidopsis thaliana	2	8	CH_ath_11	30	77	0.000000499997
Arabidopsis thaliana	2	8	CH_ath_10	29	69	0.000000114681
Arabidopsis thaliana	mitochondrial	8	CH_ath_7	30	32	7.46373e-25
Arabidopsis thaliana	mitochondrial	8	CH_ath_5	30	30	2.66287e-26
Arabidopsis thaliana	2	9	CH_ath_10	29	69	0.000000145255
Arabidopsis thaliana	2	9	CH_ath_11	30	77	0.000000634855
Arabidopsis thaliana	mitochondrial	9	CH_ath_5	30	30	3.54659e-26
Arabidopsis thaliana	mitochondrial	9	CH_ath_7	30	32	9.93055e-25
Arabidopsis thaliana	2	10	CH_ath_5	48	124	0.000000000000201011
Arabidopsis thaliana	mitochondrial	10	CH_ath_2	126	140	7.19188e-113
Arabidopsis thaliana	2	11	CH_ath_5	48	124	0.000000000000615144
Arabidopsis thaliana	mitochondrial	11	CH_ath_2	126	140	2.49779e-111
Arabidopsis thaliana	2	12	CH_ath_5	48	124	0.000000000000900704
Arabidopsis thaliana	mitochondrial	12	CH_ath_2	126	140	8.41054e-111
Brassica rapa	A02	6	CH_bra_40	18	89	0.000151662
Capsella rubella	scaffold_2	2	CH_cru_172	10	19	0.00000693636
Capsella rubella	scaffold_2	3	CH_cru_215	10	19	0.0000166807
Capsella rubella	scaffold_2	5	CH_cru_43	32	232	0.00000265278
Capsella rubella	scaffold_1	6	CH_cru_102	23	146	0.000454656
Capsella rubella	scaffold_2	6	CH_cru_71	10	19	0.0000166807
Capsella rubella	scaffold_2	6	CH_cru_73	32	232	0.0000250551
Carica papaya	supercontig_80	1	CH_cpa_155	3	6	0.000375284
Cucumis melo	CM3.5_scaffold00006	3	CH_cme_27	13	13	2.43548e-16
Cucumis melo	CM3.5_scaffold00016	3	CH_cme_148	17	76	0.00000123167
Cucumis melo	CM3.5_scaffold00006	6	CH_cme_16	13	13	2.43548e-16
Cucumis melo	CM3.5_scaffold00016	6	CH_cme_38	17	76	0.00000123167
Eucalyptus grandis	scaffold_10	2	CH_egr_293	11	17	0.000000000738382
Eucalyptus grandis	scaffold_8	3	CH_egr_558	7	8	0.0000025498
Eucalyptus grandis	scaffold_10	5	CH_egr_141	11	17	0.000000000738382
Eucalyptus grandis	scaffold_10	6	CH_egr_211	28	214	0.000000169529
Glycine max	Gm18	3	CH_gma_536	6	8	0.000652319
Gossypium raimondii	Chr02	3	CH_gra_170	7	7	0.00000109784
Malus domestica	2	3	CH_mdo_316	5	6	0.000377472
Malus domestica	7	3	CH_mdo_208	5	5	0.0000638206
Manihot esculenta	scaffold06028	3	CH_mes_298	6	8	0.000867198
Manihot esculenta	scaffold09798	3	CH_mes_293	7	12	0.000758743
Medicago truncatula	chr2	3	CH_mtr_42	18	31	3.53897e-20
Medicago truncatula	chr2	6	CH_mtr_43	18	31	3.53897e-20
Oryza sativa ssp. japonica	5	1	CH_osa_200	9	10	0.00000651126
Oryza sativa ssp. japonica	7	1	CH_osa_352	17	52	0.000373579
Oryza sativa ssp. japonica	5	2	CH_osa_229	9	10	0.0000206062
Oryza sativa ssp. japonica	7	2	CH_osa_372	18	52	0.000358162
Oryza sativa ssp. japonica	5	3	CH_osa_275	9	10	0.0000268722
Oryza sativa ssp. japonica	7	3	CH_osa_455	18	52	0.000569352
Oryza sativa ssp. japonica	5	4	CH_osa_155	10	17	0.000550033
Oryza sativa ssp. japonica	7	4	CH_osa_147	17	52	0.000373579
Oryza sativa ssp. japonica	9	4	CH_osa_61	15	23	0.0000000110885
Oryza sativa ssp. japonica	7	5	CH_osa_158	18	52	0.000358162
Oryza sativa ssp. japonica	7	6	CH_osa_174	18	52	0.000569352
Populus trichocarpa	Chr01	3	CH_ptr_326	8	12	0.0000104542
Populus trichocarpa	Chr04	3	CH_ptr_261	8	10	0.0000010022
Solanum lycopersicum	ch04	3	CH_sly_228	7	7	0.00000030633
Solanum tuberosum	chr04	3	CH_stu_230	9	9	0.000000000356411
Thellungiella parvula	ch2-2	3	CH_tpa_96	7	7	0.00000266994
Theobroma cacao	scaffold_4	3	CH_tca_127	9	11	0.0000000151301
Theobroma cacao	scaffold_4	6	CH_tca_69	11	23	0.00000021919
Vitis vinifera	chr7	3	CH_vvi_409	7	12	0.000322212
Zea mays	mitochondrial	1	CH_zma_35	7	60	0.00000000203746
Zea mays	2	6	CH_zma_20	10	14	0.00000000153117
Zea mays	mitochondrial	7	CH_zma_5	6	60	0.000000172627
Zea mays	mitochondrial	12	CH_zma_3	11	60	0.000767783

Available child term results

GO term	Description	Number of clusters
GO:0000275	mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	8
GO:0000276	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	11
GO:0005740	mitochondrial envelope	1
GO:0005741	mitochondrial outer membrane	2
GO:0005743	mitochondrial inner membrane	4
GO:0005744	mitochondrial inner membrane presequence translocase complex	12
GO:0005746	mitochondrial respiratory chain	9
GO:0005759	mitochondrial matrix	15
GO:0031305	integral to mitochondrial inner membrane	1
GO:0031307	integral to mitochondrial outer membrane	1
GO:0031314	extrinsic to mitochondrial inner membrane	20
GO:0031966	mitochondrial membrane	3
GO:0044429	mitochondrial part	78

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