PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Information

Type: InterPro domain
Identifier: IPR001509
Description: NAD-dependent epimerase/dehydratase

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	13	CH_ath_282	4	6	0.00000401555
Brachypodium distachyon	Bd1	13	CH_bdi_406	3	3	0.000369053
Brachypodium distachyon	Bd1	13	CH_bdi_405	3	3	0.000369053
Brachypodium distachyon	Bd3	13	CH_bdi_403	3	3	0.000369053
Brachypodium distachyon	Bd4	13	CH_bdi_404	3	3	0.000369053
Chlamydomonas reinhardtii	chromosome_12	13	CH_cre_33	4	5	0.0000000513399
Oryza sativa ssp. indica	Chr02	13	CH_osaindica_353	6	26	0.000000115972
Oryza sativa ssp. indica	Chr06	13	CH_osaindica_736	4	13	0.000182526
Oryza sativa ssp. indica	Chr07	13	CH_osaindica_502	4	7	0.00000899707
Oryza sativa ssp. japonica	2	13	CH_osa_651	3	3	0.000139703
Oryza sativa ssp. japonica	4	13	CH_osa_211	6	15	0.00000000152933
Oryza sativa ssp. japonica	6	13	CH_osa_581	4	11	0.0000604173
Oryza sativa ssp. japonica	9	13	CH_osa_142	6	8	0.00000000000862208
Ostreococcus lucimarinus	Chr_18	13	CH_olu_2	7	68	0.000000633991
Ostreococcus lucimarinus	Chr_18	15	CH_olu_2	6	68	0.0000310248
Populus trichocarpa	Chr01	13	CH_ptr_116	8	15	0.0000000000000542889
Populus trichocarpa	Chr02	13	CH_ptr_100	7	7	0.00000000000000456962
Setaria italica	scaffold_1	13	CH_sit_686	3	3	0.000438022
Setaria italica	scaffold_2	13	CH_sit_261	6	18	0.0000000877801
Setaria italica	scaffold_4	13	CH_sit_444	5	18	0.000018397
Setaria italica	scaffold_4	13	CH_sit_187	5	5	0.00000000219978
Setaria italica	scaffold_5	13	CH_sit_687	3	3	0.000438022
Setaria italica	scaffold_7	13	CH_sit_95	7	8	0.0000000000000838387
Setaria italica	scaffold_4	14	CH_sit_60	10	190	0.000000935644
Solanum lycopersicum	ch01	13	CH_sly_635	3	3	0.000186748
Sorghum bicolor	chr_10	13	CH_sbi_431	4	7	0.0000341739
Sorghum bicolor	chr_2	13	CH_sbi_173	5	5	0.00000000219828
Sorghum bicolor	chr_3	13	CH_sbi_630	3	3	0.000432838
Sorghum bicolor	chr_6	13	CH_sbi_37	10	15	3.01587e-19
Sorghum bicolor	chr_6	14	CH_sbi_33	10	15	3.01587e-19
Vitis vinifera	chr13	13	CH_vvi_663	5	32	0.000733714
Vitis vinifera	chr13_random	13	CH_vvi_222	6	14	0.0000000296006
Vitis vinifera	chr15	13	CH_vvi_643	3	3	0.000550049
Vitis vinifera	chr15	13	CH_vvi_644	3	3	0.000550049
Vitis vinifera	chr18	13	CH_vvi_645	3	3	0.000550049
Zea mays	7	13	CH_zma_188	5	12	0.00000123184

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