CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g25780

Gene name AOC3 (ALLENE OXIDE CYCLASE 3)

Module size 7 genes

NF 0.45

%ile 63.4

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.46 59.8 1.00 At3g25780 822169 AOC3 (ALLENE OXIDE CYCLASE 3) Encodes allene oxide cyclase, one of the enzymes involved in jasmonic acid biosynthesis. One of four genes in Arabidopsis that encode this enzyme. mRNA expression is upregulated in senescing leaves. Note: Nomenclature for Arabidopsis allene oxide cyclase 3 (AOC3, AT3G25780) gene is based on Stenzel et al. 2003 Plant Molecular Biology 51:895-911. AOC3 (AT3G25780) is also referred to as AOC2 in He et al. 2002 Plant Physiology, 128:876-884. O.I. H.G. S.X.
0.61 76.7 0.74 At1g17420 838314 LOX3 Lipoxygenase O.I. H.G. S.X.
0.46 59.8 0.73 At2g06050 815160 OPR3 (OPDA-REDUCTASE 3) Encodes a 12-oxophytodienoate reductase that is required for jasmonate biosynthesis. Mutants are male sterile and defective in pollen dehiscence. O.I. H.G. S.X.
0.44 57.2 0.78 At5g49520 835012 WRKY48 member of WRKY Transcription Factor; Group II-c O.I. H.G. S.X.
0.44 57.2 0.76 At5g65300 836655 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.40 50.8 0.76 At1g17380 838310 JAZ5 (JASMONATE-ZIM-DOMAIN PROTEIN 5) F:molecular_function unknown;P:response to jasmonic acid stimulus;C:cellular_component unknown;P O.I. H.G. S.X.
0.35 41.6 0.75 At3g51450 824308 strictosidine synthase family protein F:strictosidine synthase activity;P:alkaloid biosynthetic process, biosynthetic process;C:endomembrane system;BPMOAF O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.46	59.8	1.00	At3g25780	822169	AOC3 (ALLENE OXIDE CYCLASE 3)	Encodes allene oxide cyclase, one of the enzymes involved in jasmonic acid biosynthesis. One of four genes in Arabidopsis that encode this enzyme. mRNA expression is upregulated in senescing leaves. Note: Nomenclature for Arabidopsis allene oxide cyclase 3 (AOC3, AT3G25780) gene is based on Stenzel et al. 2003 Plant Molecular Biology 51:895-911. AOC3 (AT3G25780) is also referred to as AOC2 in He et al. 2002 Plant Physiology, 128:876-884.	O.I.	H.G.	S.X.
0.61	76.7	0.74	At1g17420	838314	LOX3	Lipoxygenase	O.I.	H.G.	S.X.
0.46	59.8	0.73	At2g06050	815160	OPR3 (OPDA-REDUCTASE 3)	Encodes a 12-oxophytodienoate reductase that is required for jasmonate biosynthesis. Mutants are male sterile and defective in pollen dehiscence.	O.I.	H.G.	S.X.
0.44	57.2	0.78	At5g49520	835012	WRKY48	member of WRKY Transcription Factor; Group II-c	O.I.	H.G.	S.X.
0.44	57.2	0.76	At5g65300	836655	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.40	50.8	0.76	At1g17380	838310	JAZ5 (JASMONATE-ZIM-DOMAIN PROTEIN 5)	F:molecular_function unknown;P:response to jasmonic acid stimulus;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.35	41.6	0.75	At3g51450	824308	strictosidine synthase family protein	F:strictosidine synthase activity;P:alkaloid biosynthetic process, biosynthetic process;C:endomembrane system;BPMOAF	O.I.	H.G.	S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
149.5 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
116.3 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
111.6 99.9 E-MEXP-807-raw-cel-1173273252
82.5 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
81.0 99.9 GSM13779 Dexamethasone plus cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
78.4 99.9 GSM13784 Cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
71.4 99.9 GSM13783 Dexamethasone plus cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
60.6 99.8 E-MEXP-807-raw-cel-1173273144
59.0 99.8 GSM13780 Cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
57.8 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
55.0 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5 99.8 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
47.9 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.9 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
34.0 99.7 E-MEXP-739-raw-cel-1099467339
32.9 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.8 99.7 GSM142740 DH001_ATH1_A7-MPG1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
27.6 99.7 GSM106916 opr3_JA_22 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
26.6 99.7 E-MEXP-285-raw-cel-440782725
26.2 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.2 99.7 E-MEXP-828-raw-cel-1156922342
24.9 99.6 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.5 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
23.6 99.6 E-MEXP-285-raw-cel-440782791
22.6 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.4 99.6 E-MEXP-739-raw-cel-1099467384
21.9 99.6 GSM142736 DH001_ATH1_A3-TCP1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
21.9 99.6 GSM131106 Broadley_1-4_A4-Bo-P3-phosphate-starved_Rep3_ATH1 GSE5614 Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
21.5 99.6 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.3 99.6 GSM239253 CaMV::DME pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
20.1 99.6 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.0 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.6 99.6 GSM239254 CaMV::DME stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
19.3 99.6 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
18.8 99.5 GSM239252 Columbia glabrous (C24) wild type stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
18.2 99.5 GSM184893 Arabidopsis, root cells, columella root cap, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
18.2 99.5 GSM131105 Broadley_1-3_A3-Bo-P2-phosphate-starved_Rep2_ATH1 GSE5614 Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
17.9 99.5 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.4 99.5 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
17.2 99.5 E-ATMX-35-raw-cel-1574334880
17.1 99.5 GSM154504 Arabidopsis desiccated mature pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
16.9 99.5 GSM142739 DH001_ATH1_A6-TCP2 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
16.5 99.5 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.1 99.5 E-MEXP-739-raw-cel-1099467393
15.4 99.5 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.1 99.4 GSM239251 Columbia glabrous (C24) wild type pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
15.0 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8 99.4 E-MEXP-739-raw-cel-1099467321
14.6 99.4 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.3 99.4 E-MEXP-1304-raw-cel-1530618235
14.1 99.4 E-ATMX-35-raw-cel-1574334864
14.0 99.4 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.9 99.4 GSM154508 Arabidopsis growing pollen tubes rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
13.7 99.4 GSM131638 ATGE_73_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
13.2 99.4 GSM131108 Broadley_1-6_A6-Bo+P3-nutrient-replete_Rep3_ATH1 GSE5614 Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
13.0 99.4 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
12.8 99.3 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.7 99.3 GSM106969 opr3_OPDA_22 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
12.7 99.3 E-MEXP-807-raw-cel-1173273116
12.3 99.3 GSM106917 opr3_JA_22 hrs_Rep3 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
12.2 99.3 E-MEXP-1138-raw-cel-1432772938
12.2 99.3 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
11.9 99.3 E-MEXP-807-raw-cel-1173273170
11.8 99.3 GSM106915 opr3_JA_22 hrs_Rep1 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
11.8 99.3 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.7 99.3 E-MEXP-739-raw-cel-1099467375
11.5 99.3 GSM184845 Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 1 GSE7639 Expression analysis of root developmental zones after treatment with salt
11.5 99.3 GSM128662 Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.4 99.3 GSM266665 Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.1 99.2 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.1 99.2 GSM106973 ws_Rep1 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
11.0 99.2 E-MEXP-715-raw-cel-1121836087
10.9 99.2 GSM311279 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
10.6 99.2 GSM154506 Arabidopsis hydrated pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
10.4 99.2 E-MEXP-1138-raw-cel-1432772906
10.0 99.2 GSM184908 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
10.0 99.2 E-MEXP-715-raw-cel-1121836113
9.9 99.1 E-MEXP-807-raw-cel-1173273088
9.8 99.1 E-MEXP-1784-raw-cel-1661573074
9.7 99.1 GSM131207 AtGen_D-41_3-DS_REP3_ATH1 GSE5617 AtGenExpress: Light treatments
9.5 99.1 GSM284392 Arabidopsis GCE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.5 99.1 GSM184916 Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
9.5 99.1 GSM184493 Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.4 99.1 GSM184918 Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
9.3 99.1 E-MEXP-1138-raw-cel-1432772586
9.2 99.1 E-MEXP-807-raw-cel-1173273060
9.1 99.1 GSM131210 AtGen_D-44_3-RS_REP3_ATH1 GSE5617 AtGenExpress: Light treatments
9.0 99.1 E-MEXP-1138-raw-cel-1432772682
8.9 99.0 GSM184492 Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.8 99.0 GSM131174 AtGen_D-6_1-AL_REP1_ATH1 GSE5617 AtGenExpress: Light treatments
8.7 99.0 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.7 99.0 GSM284393 Arabidopsis GCE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
149.5	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
116.3	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
111.6	99.9	E-MEXP-807-raw-cel-1173273252
82.5	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
81.0	99.9	GSM13779	Dexamethasone plus cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
78.4	99.9	GSM13784	Cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
71.4	99.9	GSM13783	Dexamethasone plus cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
60.6	99.8	E-MEXP-807-raw-cel-1173273144
59.0	99.8	GSM13780	Cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
57.8	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
55.0	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5	99.8	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
47.9	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.9	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
34.0	99.7	E-MEXP-739-raw-cel-1099467339
32.9	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.8	99.7	GSM142740	DH001_ATH1_A7-MPG1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
27.6	99.7	GSM106916	opr3_JA_22 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
26.6	99.7	E-MEXP-285-raw-cel-440782725
26.2	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.2	99.7	E-MEXP-828-raw-cel-1156922342
24.9	99.6	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.5	99.6	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
23.6	99.6	E-MEXP-285-raw-cel-440782791
22.6	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.4	99.6	E-MEXP-739-raw-cel-1099467384
21.9	99.6	GSM142736	DH001_ATH1_A3-TCP1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
21.9	99.6	GSM131106	Broadley_1-4_A4-Bo-P3-phosphate-starved_Rep3_ATH1	GSE5614	Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
21.5	99.6	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.3	99.6	GSM239253	CaMV::DME pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
20.1	99.6	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.0	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.6	99.6	GSM239254	CaMV::DME stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
19.3	99.6	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
18.8	99.5	GSM239252	Columbia glabrous (C24) wild type stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
18.2	99.5	GSM184893	Arabidopsis, root cells, columella root cap, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
18.2	99.5	GSM131105	Broadley_1-3_A3-Bo-P2-phosphate-starved_Rep2_ATH1	GSE5614	Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
17.9	99.5	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.4	99.5	GSM131636	ATGE_73_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
17.2	99.5	E-ATMX-35-raw-cel-1574334880
17.1	99.5	GSM154504	Arabidopsis desiccated mature pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
16.9	99.5	GSM142739	DH001_ATH1_A6-TCP2	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
16.5	99.5	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.1	99.5	E-MEXP-739-raw-cel-1099467393
15.4	99.5	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.1	99.4	GSM239251	Columbia glabrous (C24) wild type pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
15.0	99.4	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8	99.4	E-MEXP-739-raw-cel-1099467321
14.6	99.4	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.3	99.4	E-MEXP-1304-raw-cel-1530618235
14.1	99.4	E-ATMX-35-raw-cel-1574334864
14.0	99.4	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.9	99.4	GSM154508	Arabidopsis growing pollen tubes rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
13.7	99.4	GSM131638	ATGE_73_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
13.2	99.4	GSM131108	Broadley_1-6_A6-Bo+P3-nutrient-replete_Rep3_ATH1	GSE5614	Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
13.0	99.4	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
12.8	99.3	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.7	99.3	GSM106969	opr3_OPDA_22 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
12.7	99.3	E-MEXP-807-raw-cel-1173273116
12.3	99.3	GSM106917	opr3_JA_22 hrs_Rep3	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
12.2	99.3	E-MEXP-1138-raw-cel-1432772938
12.2	99.3	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
11.9	99.3	E-MEXP-807-raw-cel-1173273170
11.8	99.3	GSM106915	opr3_JA_22 hrs_Rep1	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
11.8	99.3	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.7	99.3	E-MEXP-739-raw-cel-1099467375
11.5	99.3	GSM184845	Arabidopsis, root, longitudinal zone 4, standard conditions, NaCl, replicate 1	GSE7639	Expression analysis of root developmental zones after treatment with salt
11.5	99.3	GSM128662	Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.4	99.3	GSM266665	Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.1	99.2	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.1	99.2	GSM106973	ws_Rep1	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
11.0	99.2	E-MEXP-715-raw-cel-1121836087
10.9	99.2	GSM311279	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
10.6	99.2	GSM154506	Arabidopsis hydrated pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
10.4	99.2	E-MEXP-1138-raw-cel-1432772906
10.0	99.2	GSM184908	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
10.0	99.2	E-MEXP-715-raw-cel-1121836113
9.9	99.1	E-MEXP-807-raw-cel-1173273088
9.8	99.1	E-MEXP-1784-raw-cel-1661573074
9.7	99.1	GSM131207	AtGen_D-41_3-DS_REP3_ATH1	GSE5617	AtGenExpress: Light treatments
9.5	99.1	GSM284392	Arabidopsis GCE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.5	99.1	GSM184916	Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
9.5	99.1	GSM184493	Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.4	99.1	GSM184918	Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
9.3	99.1	E-MEXP-1138-raw-cel-1432772586
9.2	99.1	E-MEXP-807-raw-cel-1173273060
9.1	99.1	GSM131210	AtGen_D-44_3-RS_REP3_ATH1	GSE5617	AtGenExpress: Light treatments
9.0	99.1	E-MEXP-1138-raw-cel-1432772682
8.9	99.0	GSM184492	Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.8	99.0	GSM131174	AtGen_D-6_1-AL_REP1_ATH1	GSE5617	AtGenExpress: Light treatments
8.7	99.0	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.7	99.0	GSM284393	Arabidopsis GCE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.200 3 GO:0009695 The chemical reactions and pathways resulting in the formation of jasmonic acid, a fatty acid derivative.
0.150 3 GO:0009620 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a fungus.
0.100 1 GO:0009821 The chemical reactions and pathways resulting in the formation of alkaloids, nitrogen-containing natural products which are not otherwise classified as nonprotein amino acids, amines, peptides, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones, or primary metabolite (such as purine or pyrimidine bases).

SF	Genes	GO ID	Process Name
0.200	3	GO:0009695	The chemical reactions and pathways resulting in the formation of jasmonic acid, a fatty acid derivative.
0.150	3	GO:0009620	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a fungus.
0.100	1	GO:0009821	The chemical reactions and pathways resulting in the formation of alkaloids, nitrogen-containing natural products which are not otherwise classified as nonprotein amino acids, amines, peptides, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones, or primary metabolite (such as purine or pyrimidine bases).

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.167 3 00592 alpha-Linolenic acid metabolism
0.019 3 01070 Biosynthesis of plant hormones
0.005 3 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.167	3	00592	alpha-Linolenic acid metabolism
0.019	3	01070	Biosynthesis of plant hormones
0.005	3	01100	Metabolic pathways

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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Gene ID	At3g25780
Gene name	AOC3 (ALLENE OXIDE CYCLASE 3)
Module size	7 genes
NF	0.45
%ile	63.4

Co-expression analysis

Gene ID At3g25780 Gene name AOC3 (ALLENE OXIDE CYCLASE 3) Module size 7 genes NF 0.45 %ile 63.4

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.167300592alpha-Linolenic acid metabolism0.019301070Biosynthesis of plant hormones0.005301100Metabolic pathways

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At3g25780

Gene name AOC3 (ALLENE OXIDE CYCLASE 3)

Module size 7 genes

NF 0.45

%ile 63.4

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes KEGG ID Pathway name Link to KEGG
0.167 3 00592 alpha-Linolenic acid metabolism
0.019 3 01070 Biosynthesis of plant hormones
0.005 3 01100 Metabolic pathways

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays