Co-expression analysis

Gene ID At2g30490
Gene name C4H (CINNAMATE-4-HYDROXYLASE)
Module size 5 genes
NF 0.64
%ile 85.1



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: 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
0.4761.21.00At2g30490817599C4H (CINNAMATE-4-HYDROXYLASE)Encodes a cinnamate-4-hydroxylase.O.I.H.G.S.X.
0.8089.80.87At1g28680839768transferase family proteinF:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFO.I.H.G.S.X.
0.7385.50.88At2g40890818686CYP98A3 (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.
0.6781.60.87At1g52760841709esterase/lipase/thioesterase family proteinF:catalytic activity;P:unknown;C:cellular_component unknown;BPOMFVAO.I.H.G.S.X.
0.6781.60.90At2g37040818280pal1 (Phe ammonia lyase 1)encodes a protein similar to phenylalanine ammonia-lyaseO.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
219.7100.0GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
196.5100.0GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
163.899.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
135.399.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.399.8GSM265425Arabidopsis, root, longitudinal zone 4, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
59.799.8GSM265422Arabidopsis, root, longitudinal zone 3, standard conditions, rep1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
58.699.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
52.499.8GSM265424Arabidopsis, root, longitudinal zone 4, standard conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
41.099.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
38.799.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.999.7GSM265431Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
25.999.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.899.6GSM265433Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
23.299.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.099.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.599.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.999.6GSM131588ATGE_35_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
19.799.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.699.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.599.6GSM265432Arabidopsis, root, longitudinal zone 4, -Fe conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
19.499.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.399.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.699.5GSM131589ATGE_35_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.999.5GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.899.5GSM226552Slice10JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
17.499.5GSM131590ATGE_35_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.499.5GSM265423Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
17.099.5GSM265430Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1GSE10497Expression analysis of root developmental zones after iron deficiency (-Fe) treatmentLink to GEO
16.399.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.299.5GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.499.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.199.4GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.999.4GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.899.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.199.4GSM179958Arabidopsis roots, air treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
13.999.4GSM133126S0_2H_BGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
13.499.4GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.599.3GSM133138S1500_2H_BGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
12.499.3GSM179960Arabidopsis roots, ethylene treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
12.099.3GSM133139S1500_4H_AGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
11.599.3GSM67086Arabidopsis_Stigma02GSE3056Arabidopsis Pollination StudyLink to GEO
11.399.3GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.399.3GSM265413Arabidopsis, whole roots, -Fe, replicate 3GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO
11.399.3GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
11.199.2GSM226554Slice12JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.999.2GSM179977Arabidopsis ein2 mutant roots, IAA treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
10.899.2GSM226541L11SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.599.2GSM179971Arabidopsis roots, mock treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
10.499.2GSM226553Slice11JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.399.2GSM133130S0_8H_BGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
10.299.2GSM179963Arabidopsis aux1 mutant roots, air treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
10.099.2GSM179973Arabidopsis roots, IAA treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO
10.099.2E-MEXP-828-raw-cel-1156922485
9.699.1E-MEXP-828-raw-cel-1156922509
9.399.1GSM133125S0_2H_AGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
9.199.1GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.199.1GSM184838Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8GSE7639Expression analysis of root developmental zones after treatment with saltLink to GEO
9.199.1GSM133135S1500_24H_AGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
9.099.1GSM133121S0_12H_AGSE5688AtGenExpress: Response to sulfate limitationLink to GEO
8.799.0GSM179975Arabidopsis ein2 mutant roots, mock treatment, replica 1GSE7432Ethylene and auxin interactions in the roots of Arabidopsis seedlingsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3753GO:0009699The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.Link to AmiGO
0.2501GO:0009805The chemical reactions and pathways resulting in the formation of coumarins, a class of compounds derived from the phenylacrylic skeleton of cinnamic acids.Link to AmiGO
0.2221GO:0009808The chemical reactions and pathways involving lignins, a class of polymers of phenylpropanoid units.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.190200941Flavonoid biosynthesisLink to KEGG PATHWAY
0.087100960Tropane, piperidine and pyridine alkaloid biosynthesisLink to KEGG PATHWAY
0.056300940Phenylpropanoid biosynthesisLink to KEGG PATHWAY
0.056200945Stilbenoid, diarylheptanoid and gingerol biosynthesisLink to KEGG PATHWAY
0.047200360Phenylalanine metabolismLink to KEGG PATHWAY

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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