PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0009535
Description: chloroplast thylakoid membrane

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Amborella trichopoda	chloroplast	1	CH_atr_1	30	60	7.30343e-68
Amborella trichopoda	chloroplast	3	CH_atr_8	30	59	3.35639e-38
Chlamydomonas reinhardtii	chloroplast	1	CH_cre_1	29	68	9.59966e-54
Chlamydomonas reinhardtii	chloroplast	2	CH_cre_2	30	68	6.49954e-36
Chlamydomonas reinhardtii	chloroplast	3	CH_cre_3	30	68	2.41796e-35
Chlamydomonas reinhardtii	chloroplast	9	CH_cre_1	26	68	5.62499e-29
Citrus sinensis	chloroplast	8	CH_csi_1	29	76	2.28646e-31
Citrus sinensis	chloroplast	9	CH_csi_1	29	76	2.62657e-31
Glycine max	chloroplast	1	CH_gma_1	30	62	1.77963e-72
Glycine max	Gm12	1	CH_gma_65	5	6	0.000000000266542
Glycine max	chloroplast	3	CH_gma_7	30	61	1.44043e-36
Glycine max	Gm12	7	CH_gma_2	5	6	0.0000000000500253
Lotus japonicus	chloroplast	1	CH_lja_1	30	63	9.14863e-69
Oryza sativa ssp. japonica	10	1	CH_osa_62	7	10	0.00000000000268433
Oryza sativa ssp. japonica	6	1	CH_osa_181	4	4	0.00000180359
Oryza sativa ssp. japonica	7	1	CH_osa_381	3	3	0.000765828
Oryza sativa ssp. japonica	chloroplast	1	CH_osa_1	30	72	1.2628e-55
Oryza sativa ssp. japonica	6	2	CH_osa_313	4	4	0.000132054
Oryza sativa ssp. japonica	chloroplast	2	CH_osa_1	30	57	9.66433e-45
Oryza sativa ssp. japonica	chloroplast	3	CH_osa_1	30	57	1.3235e-44
Oryza sativa ssp. japonica	chloroplast	4	CH_osa_1	39	132	3.98218e-67
Oryza sativa ssp. japonica	10	7	CH_osa_16	5	10	0.000000129398
Oryza sativa ssp. japonica	chloroplast	7	CH_osa_1	25	81	9.51313e-46
Oryza sativa ssp. japonica	chloroplast	8	CH_osa_1	28	81	1.69879e-37
Oryza sativa ssp. japonica	chloroplast	9	CH_osa_1	28	81	2.40658e-37
Oryza sativa ssp. japonica	chloroplast	10	CH_osa_1	25	81	9.51313e-46
Populus trichocarpa	chloroplast	2	CH_ptr_7	30	56	2.40712e-38
Populus trichocarpa	chloroplast	3	CH_ptr_9	30	56	4.56287e-38
Solanum lycopersicum	chloroplast	2	CH_sly_2	30	53	4.20021e-40
Solanum lycopersicum	chloroplast	3	CH_sly_3	30	53	6.21344e-40
Solanum lycopersicum	chloroplast	8	CH_sly_1	28	72	1.75243e-33
Solanum lycopersicum	chloroplast	9	CH_sly_2	28	72	2.71707e-33
Solanum tuberosum	chloroplast	1	CH_stu_1	30	69	4.99551e-63
Solanum tuberosum	chr01	1	CH_stu_234	4	4	0.000000288911
Solanum tuberosum	chloroplast	2	CH_stu_4	30	57	4.87467e-39
Solanum tuberosum	chloroplast	3	CH_stu_10	30	57	7.82814e-39
Solanum tuberosum	chloroplast	8	CH_stu_1	28	69	1.2781e-34
Solanum tuberosum	chloroplast	9	CH_stu_1	28	69	2.24166e-34
Vitis vinifera	chloroplast	1	CH_vvi_2	30	63	1.27038e-63
Vitis vinifera	chloroplast	2	CH_vvi_5	30	55	5.8338e-39
Vitis vinifera	chloroplast	3	CH_vvi_8	30	55	8.63267e-39
Zea mays	chloroplast	1	CH_zma_3	22	81	1.31164e-38
Zea mays	1	2	CH_zma_14	10	10	3.40244e-16
Zea mays	1	2	CH_zma_65	10	40	0.000000220936
Zea mays	1	3	CH_zma_14	10	10	5.20478e-16
Zea mays	1	3	CH_zma_92	10	40	0.000000334025
Zea mays	1	5	CH_zma_9	10	10	3.40244e-16
Zea mays	1	5	CH_zma_21	10	40	0.000000220936
Zea mays	1	6	CH_zma_9	10	10	5.20478e-16
Zea mays	1	6	CH_zma_27	10	40	0.000000334025
Zea mays	chloroplast	8	CH_zma_2	10	31	0.00000000112395
Zea mays	chloroplast	9	CH_zma_1	10	31	0.00000000186164
Zea mays	chloroplast	11	CH_zma_2	10	31	0.00000000112395
Zea mays	chloroplast	12	CH_zma_2	10	31	0.00000000186164

Available child term results

GO term	Description	Number of clusters
GO:0030095	chloroplast photosystem II	1

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