CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g22410

Gene name 2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative

Module size 6 genes

NF 0.58

%ile 79.5

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
0.32 35.7 1.00 At1g22410 838847 2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative F:3-deoxy-7-phosphoheptulonate synthase activity;P:aromatic amino acid family biosynthetic process;C:membrane;OBPF O.I. H.G. S.X.
0.91 95.6 0.87 At2g37040 818280 pal1 (Phe ammonia lyase 1) encodes a protein similar to phenylalanine ammonia-lyase O.I. H.G. S.X.
0.67 81.6 0.85 At1g28680 839768 transferase family protein F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PF O.I. H.G. S.X.
0.67 81.6 0.90 At2g30490 817599 C4H (CINNAMATE-4-HYDROXYLASE) Encodes a cinnamate-4-hydroxylase. O.I. H.G. S.X.
0.61 76.7 0.87 At2g40890 818686 CYP98A3 (cytochrome P450, family 98, subfamily A, polypeptide 3) encodes coumarate 3-hydroxylase (C3H), a P450-dependent monooxygenase. Involved in lignin biosynthesis and flavonoid biosynthesis. Also affects the biosynthesis of coumarins such as scopoletin and scopolin as a branching-out-pathway from the phenylpropanoid acid level. O.I. H.G. S.X.
0.53 68.6 0.84 At1g51680 841593 4CL1 (4-COUMARATE:COA LIGASE 1) encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. In addition to 4-coumarate, it also converts ferulate. The catalytic efficiency was in the following (descending) order: p-coumaric acid, ferulic acid, caffeic acid and 5-OH-ferulic acid. At4CL1 was unable to use sinapic acid as substrate. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.32	35.7	1.00	At1g22410	838847	2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative	F:3-deoxy-7-phosphoheptulonate synthase activity;P:aromatic amino acid family biosynthetic process;C:membrane;OBPF	O.I.	H.G.	S.X.
0.91	95.6	0.87	At2g37040	818280	pal1 (Phe ammonia lyase 1)	encodes a protein similar to phenylalanine ammonia-lyase	O.I.	H.G.	S.X.
0.67	81.6	0.85	At1g28680	839768	transferase family protein	F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PF	O.I.	H.G.	S.X.
0.67	81.6	0.90	At2g30490	817599	C4H (CINNAMATE-4-HYDROXYLASE)	Encodes a cinnamate-4-hydroxylase.	O.I.	H.G.	S.X.
0.61	76.7	0.87	At2g40890	818686	CYP98A3 (cytochrome P450, family 98, subfamily A, polypeptide 3)	encodes coumarate 3-hydroxylase (C3H), a P450-dependent monooxygenase. Involved in lignin biosynthesis and flavonoid biosynthesis. Also affects the biosynthesis of coumarins such as scopoletin and scopolin as a branching-out-pathway from the phenylpropanoid acid level.	O.I.	H.G.	S.X.
0.53	68.6	0.84	At1g51680	841593	4CL1 (4-COUMARATE:COA LIGASE 1)	encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. In addition to 4-coumarate, it also converts ferulate. The catalytic efficiency was in the following (descending) order: p-coumaric acid, ferulic acid, caffeic acid and 5-OH-ferulic acid. At4CL1 was unable to use sinapic acid as substrate.	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
184.2 100.0 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
166.9 100.0 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
140.5 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
114.4 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.3 99.8 GSM265425 Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
50.1 99.8 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
49.8 99.8 GSM265422 Arabidopsis, root, longitudinal zone 3, standard conditions, rep1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
43.6 99.8 GSM265424 Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
40.3 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.4 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
35.2 99.7 GSM270814 Arabidopsis cell culture, 4 h_control_rep1 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
34.7 99.7 GSM270853 Arabidopsis cell culture, 4 h_control_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
24.5 99.6 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.5 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
23.3 99.6 GSM154505 Arabidopsis hydrated pollen grains rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.9 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.3 99.6 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.1 99.6 GSM270865 Arabidopsis cell culture, 4 h_control_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
21.6 99.6 GSM265431 Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
21.2 99.6 GSM154503 Arabidopsis desiccated mature pollen grains rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
21.1 99.6 GSM154507 Arabidopsis growing pollen tubes rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
20.4 99.6 E-MEXP-1138-raw-cel-1432772938
20.2 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
20.0 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.9 99.6 GSM265433 Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
19.3 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.1 99.6 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.0 99.5 E-MEXP-1138-raw-cel-1432772778
18.9 99.5 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7 99.5 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4 99.5 E-MEXP-1138-raw-cel-1432772874
18.2 99.5 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.1 99.5 E-MEXP-1138-raw-cel-1432772746
17.8 99.5 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.2 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8 99.5 GSM131588 ATGE_35_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
16.7 99.5 E-MEXP-1138-raw-cel-1432772810
16.6 99.5 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.3 99.5 GSM265432 Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
16.2 99.5 E-MEXP-1138-raw-cel-1432772842
15.9 99.5 E-MEXP-1138-raw-cel-1432773098
15.6 99.5 GSM131589 ATGE_35_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
15.6 99.5 E-MEXP-1138-raw-cel-1432773002
15.3 99.4 E-MEXP-1138-raw-cel-1432773034
15.1 99.4 E-MEXP-1138-raw-cel-1432772714
15.1 99.4 E-MEXP-1138-raw-cel-1432773066
15.0 99.4 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.9 99.4 E-MEXP-1138-raw-cel-1432772970
14.8 99.4 GSM226552 Slice10JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.7 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.6 99.4 GSM154506 Arabidopsis hydrated pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
14.6 99.4 GSM131590 ATGE_35_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
14.5 99.4 GSM265423 Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
14.5 99.4 GSM154504 Arabidopsis desiccated mature pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
14.5 99.4 E-MEXP-1138-raw-cel-1432773386
14.3 99.4 E-MEXP-1138-raw-cel-1432773258
14.3 99.4 E-MEXP-1138-raw-cel-1432772618
14.3 99.4 E-MEXP-1138-raw-cel-1432773322
14.2 99.4 E-MEXP-1138-raw-cel-1432772522
14.2 99.4 E-MEXP-1138-raw-cel-1432772906
14.2 99.4 GSM265430 Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
14.0 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
14.0 99.4 E-MEXP-1138-raw-cel-1432773130
13.9 99.4 E-MEXP-1138-raw-cel-1432772650
13.9 99.4 E-MEXP-1138-raw-cel-1432773194
13.8 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.5 99.4 GSM133126 S0_2H_B GSE5688 AtGenExpress: Response to sulfate limitation
13.5 99.4 E-MEXP-1138-raw-cel-1432773226
13.3 99.4 E-MEXP-1138-raw-cel-1432773290
12.7 99.3 E-MEXP-1138-raw-cel-1432772586
12.4 99.3 E-MEXP-1138-raw-cel-1432773354
12.4 99.3 E-MEXP-1138-raw-cel-1432773162
12.2 99.3 GSM270868 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
12.2 99.3 GSM179958 Arabidopsis roots, air treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.2 99.3 E-MEXP-1138-raw-cel-1432772554
12.1 99.3 E-MEXP-1138-raw-cel-1432772682
11.9 99.3 GSM142736 DH001_ATH1_A3-TCP1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
11.8 99.3 GSM142739 DH001_ATH1_A6-TCP2 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
11.7 99.3 GSM131638 ATGE_73_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
11.6 99.3 E-ATMX-35-raw-cel-1574334864
11.6 99.3 E-MEXP-285-raw-cel-440782791
11.6 99.3 GSM133138 S1500_2H_B GSE5688 AtGenExpress: Response to sulfate limitation
11.4 99.3 GSM270870 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
11.2 99.2 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
10.8 99.2 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
10.8 99.2 GSM179960 Arabidopsis roots, ethylene treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.7 99.2 GSM142740 DH001_ATH1_A7-MPG1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
10.5 99.2 GSM270866 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
10.2 99.2 GSM133139 S1500_4H_A GSE5688 AtGenExpress: Response to sulfate limitation
10.0 99.2 GSM106969 opr3_OPDA_22 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
9.8 99.1 GSM67086 Arabidopsis_Stigma02 GSE3056 Arabidopsis Pollination Study
9.5 99.1 GSM133130 S0_8H_B GSE5688 AtGenExpress: Response to sulfate limitation
9.5 99.1 E-ATMX-35-raw-cel-1574334880
9.5 99.1 E-MEXP-285-raw-cel-440782725
9.4 99.1 GSM265413 Arabidopsis, whole roots, -Fe, replicate 3 GSE10496 Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)
9.3 99.1 GSM239251 Columbia glabrous (C24) wild type pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.3 99.1 GSM179977 Arabidopsis ein2 mutant roots, IAA treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.3 99.1 GSM239253 CaMV::DME pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.3 99.1 GSM226554 Slice12JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.0 99.1 GSM179971 Arabidopsis roots, mock treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.0 99.1 GSM226541 L11SB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.9 99.0 E-ATMX-1-raw-cel-1112746095
8.9 99.0 GSM179963 Arabidopsis aux1 mutant roots, air treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8 99.0 GSM133121 S0_12H_A GSE5688 AtGenExpress: Response to sulfate limitation
8.7 99.0 GSM179973 Arabidopsis roots, IAA treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.7 99.0 GSM106916 opr3_JA_22 hrs_Rep2 GSE4733 Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
8.7 99.0 GSM131609 ATGE_43_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.7 99.0 GSM131610 ATGE_43_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.7 99.0 E-MEXP-828-raw-cel-1156922485
8.7 99.0 GSM226553 Slice11JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
184.2	100.0	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
166.9	100.0	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
140.5	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
114.4	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.3	99.8	GSM265425	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
50.1	99.8	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
49.8	99.8	GSM265422	Arabidopsis, root, longitudinal zone 3, standard conditions, rep1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
43.6	99.8	GSM265424	Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
40.3	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.4	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
35.2	99.7	GSM270814	Arabidopsis cell culture, 4 h_control_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
34.7	99.7	GSM270853	Arabidopsis cell culture, 4 h_control_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
24.5	99.6	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.5	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
23.3	99.6	GSM154505	Arabidopsis hydrated pollen grains rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.9	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.3	99.6	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.1	99.6	GSM270865	Arabidopsis cell culture, 4 h_control_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
21.6	99.6	GSM265431	Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
21.2	99.6	GSM154503	Arabidopsis desiccated mature pollen grains rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
21.1	99.6	GSM154507	Arabidopsis growing pollen tubes rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
20.4	99.6	E-MEXP-1138-raw-cel-1432772938
20.2	99.6	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.0	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.9	99.6	GSM265433	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
19.3	99.6	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.1	99.6	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.0	99.5	E-MEXP-1138-raw-cel-1432772778
18.9	99.5	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7	99.5	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4	99.5	E-MEXP-1138-raw-cel-1432772874
18.2	99.5	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.1	99.5	E-MEXP-1138-raw-cel-1432772746
17.8	99.5	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.2	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8	99.5	GSM131588	ATGE_35_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
16.7	99.5	E-MEXP-1138-raw-cel-1432772810
16.6	99.5	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.3	99.5	GSM265432	Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
16.2	99.5	E-MEXP-1138-raw-cel-1432772842
15.9	99.5	E-MEXP-1138-raw-cel-1432773098
15.6	99.5	GSM131589	ATGE_35_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
15.6	99.5	E-MEXP-1138-raw-cel-1432773002
15.3	99.4	E-MEXP-1138-raw-cel-1432773034
15.1	99.4	E-MEXP-1138-raw-cel-1432772714
15.1	99.4	E-MEXP-1138-raw-cel-1432773066
15.0	99.4	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.9	99.4	E-MEXP-1138-raw-cel-1432772970
14.8	99.4	GSM226552	Slice10JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.7	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.6	99.4	GSM154506	Arabidopsis hydrated pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
14.6	99.4	GSM131590	ATGE_35_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
14.5	99.4	GSM265423	Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
14.5	99.4	GSM154504	Arabidopsis desiccated mature pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
14.5	99.4	E-MEXP-1138-raw-cel-1432773386
14.3	99.4	E-MEXP-1138-raw-cel-1432773258
14.3	99.4	E-MEXP-1138-raw-cel-1432772618
14.3	99.4	E-MEXP-1138-raw-cel-1432773322
14.2	99.4	E-MEXP-1138-raw-cel-1432772522
14.2	99.4	E-MEXP-1138-raw-cel-1432772906
14.2	99.4	GSM265430	Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
14.0	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
14.0	99.4	E-MEXP-1138-raw-cel-1432773130
13.9	99.4	E-MEXP-1138-raw-cel-1432772650
13.9	99.4	E-MEXP-1138-raw-cel-1432773194
13.8	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.5	99.4	GSM133126	S0_2H_B	GSE5688	AtGenExpress: Response to sulfate limitation
13.5	99.4	E-MEXP-1138-raw-cel-1432773226
13.3	99.4	E-MEXP-1138-raw-cel-1432773290
12.7	99.3	E-MEXP-1138-raw-cel-1432772586
12.4	99.3	E-MEXP-1138-raw-cel-1432773354
12.4	99.3	E-MEXP-1138-raw-cel-1432773162
12.2	99.3	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
12.2	99.3	GSM179958	Arabidopsis roots, air treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.2	99.3	E-MEXP-1138-raw-cel-1432772554
12.1	99.3	E-MEXP-1138-raw-cel-1432772682
11.9	99.3	GSM142736	DH001_ATH1_A3-TCP1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
11.8	99.3	GSM142739	DH001_ATH1_A6-TCP2	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
11.7	99.3	GSM131638	ATGE_73_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
11.6	99.3	E-ATMX-35-raw-cel-1574334864
11.6	99.3	E-MEXP-285-raw-cel-440782791
11.6	99.3	GSM133138	S1500_2H_B	GSE5688	AtGenExpress: Response to sulfate limitation
11.4	99.3	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
11.2	99.2	GSM131636	ATGE_73_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
10.8	99.2	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
10.8	99.2	GSM179960	Arabidopsis roots, ethylene treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.7	99.2	GSM142740	DH001_ATH1_A7-MPG1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
10.5	99.2	GSM270866	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
10.2	99.2	GSM133139	S1500_4H_A	GSE5688	AtGenExpress: Response to sulfate limitation
10.0	99.2	GSM106969	opr3_OPDA_22 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
9.8	99.1	GSM67086	Arabidopsis_Stigma02	GSE3056	Arabidopsis Pollination Study
9.5	99.1	GSM133130	S0_8H_B	GSE5688	AtGenExpress: Response to sulfate limitation
9.5	99.1	E-ATMX-35-raw-cel-1574334880
9.5	99.1	E-MEXP-285-raw-cel-440782725
9.4	99.1	GSM265413	Arabidopsis, whole roots, -Fe, replicate 3	GSE10496	Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)
9.3	99.1	GSM239251	Columbia glabrous (C24) wild type pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.3	99.1	GSM179977	Arabidopsis ein2 mutant roots, IAA treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.3	99.1	GSM239253	CaMV::DME pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.3	99.1	GSM226554	Slice12JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.0	99.1	GSM179971	Arabidopsis roots, mock treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.0	99.1	GSM226541	L11SB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.9	99.0	E-ATMX-1-raw-cel-1112746095
8.9	99.0	GSM179963	Arabidopsis aux1 mutant roots, air treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8	99.0	GSM133121	S0_12H_A	GSE5688	AtGenExpress: Response to sulfate limitation
8.7	99.0	GSM179973	Arabidopsis roots, IAA treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.7	99.0	GSM106916	opr3_JA_22 hrs_Rep2	GSE4733	Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profiling
8.7	99.0	GSM131609	ATGE_43_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.7	99.0	GSM131610	ATGE_43_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.7	99.0	E-MEXP-828-raw-cel-1156922485
8.7	99.0	GSM226553	Slice11JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.353 3 GO:0009699 The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.
0.222 1 GO:0009805 The chemical reactions and pathways resulting in the formation of coumarins, a class of compounds derived from the phenylacrylic skeleton of cinnamic acids.
0.222 2 GO:0009698 The chemical reactions and pathways involving aromatic derivatives of trans-cinnamic acid.

SF	Genes	GO ID	Process Name
0.353	3	GO:0009699	The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.
0.222	1	GO:0009805	The chemical reactions and pathways resulting in the formation of coumarins, a class of compounds derived from the phenylacrylic skeleton of cinnamic acids.
0.222	2	GO:0009698	The chemical reactions and pathways involving aromatic derivatives of trans-cinnamic acid.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.182 2 00941 Flavonoid biosynthesis
0.083 1 00960 Tropane, piperidine and pyridine alkaloid biosynthesis
0.074 4 00940 Phenylpropanoid biosynthesis

SF	Genes	KEGG ID	Pathway name
0.182	2	00941	Flavonoid biosynthesis
0.083	1	00960	Tropane, piperidine and pyridine alkaloid biosynthesis
0.074	4	00940	Phenylpropanoid biosynthesis

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

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At1g22410
Gene name	2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative
Module size	6 genes
NF	0.58
%ile	79.5

Co-expression analysis

Gene ID At1g22410 Gene name 2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative Module size 6 genes NF 0.58 %ile 79.5

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 KEGG0.182200941Flavonoid biosynthesis0.083100960Tropane, piperidine and pyridine alkaloid biosynthesis0.074400940Phenylpropanoid biosynthesis

Inter-species module comparison

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

Gene ID At1g22410

Gene name 2-dehydro-3-deoxyphosphoheptonate aldolase, putative / 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase, putative / DAHP synthetase, putative

Module size 6 genes

NF 0.58

%ile 79.5

: 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
0.182 2 00941 Flavonoid biosynthesis
0.083 1 00960 Tropane, piperidine and pyridine alkaloid biosynthesis
0.074 4 00940 Phenylpropanoid biosynthesis

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