Co-expression analysis

Gene ID At3g05730
Gene name -
Module size 19 genes
NF 0.50
%ile 70.1



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
1.00100.01.00At3g05730819742-Encodes a defensin-like (DEFL) family protein.O.I.H.G.S.X.
0.6176.70.78At2g24090816943ribosomal protein L35 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, chloroplast;BOPMFO.I.H.G.S.X.
0.6176.70.78At2g3345081791050S ribosomal protein L28, chloroplast (CL28)F:structural constituent of ribosome;P:translation;C:ribosome, chloroplast, membrane;BOPFO.I.H.G.S.X.
0.6176.70.77At3g27160822335GHS1 (GLUCOSE HYPERSENSITIVE 1)GHS1 encodes plastid ribosomal protein S21O.I.H.G.S.X.
0.6075.70.78At1g64510842759ribosomal protein S6 family proteinF:structural constituent of ribosome;P:translation, ribosome biogenesis;C:thylakoid, chloroplast thylakoid membrane, ribosome, chloroplast;BOPO.I.H.G.S.X.
0.5773.80.76At1g68590843189plastid-specific 30S ribosomal protein 3, putative / PSRP-3, putativeF:structural constituent of ribosome;P:translation;C:thylakoid, chloroplast thylakoid membrane, chloroplast;OBPO.I.H.G.S.X.
0.5773.80.77At1g79850844324RPS17 (RIBOSOMAL PROTEIN S17)nuclear-encoded 30S chloroplast ribosomal protein S17O.I.H.G.S.X.
0.5570.60.77At5g47190834765ribosomal protein L19 family proteinF:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, chloroplast stroma, chloroplast, membrane, chloroplast envelope;BOPMFO.I.H.G.S.X.
0.5267.40.76At3g1312082050030S ribosomal protein S10, chloroplast, putativeF:structural constituent of ribosome, RNA binding;P:translation;C:small ribosomal subunit, chloroplast;BOMAPFO.I.H.G.S.X.
0.5166.30.76At1g29070839781ribosomal protein L34 family proteinF:structural constituent of ribosome;P:translation, ribosome biogenesis;C:ribosome, intracellular, chloroplast;BPOFO.I.H.G.S.X.
0.5166.30.79At4g01310827947ribosomal protein L5 family proteinF:structural constituent of ribosome;P:translation;C:in 6 components;BOPAFMO.I.H.G.S.X.
0.5166.30.76At3g54210824588ribosomal protein L17 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, chloroplast;BOMFPO.I.H.G.S.X.
0.5166.30.77At1g75350843871emb2184 (embryo defective 2184)F:structural constituent of ribosome;P:embryonic development ending in seed dormancy, translation, ribosome biogenesis;C:ribosome, chloroplast, chloroplast stroma, chloroplast envelope;BOPO.I.H.G.S.X.
0.5065.30.76At1g78630844199emb1473 (embryo defective 1473)F:structural constituent of ribosome;P:embryonic development ending in seed dormancy, translation;C:thylakoid, ribosome, chloroplast, chloroplast stroma;BOMFAPO.I.H.G.S.X.
0.5065.30.76At3g52150824379RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:thylakoid, chloroplast thylakoid membrane, chloroplast stroma, chloroplast, chloroplast envelope;MPOFBAO.I.H.G.S.X.
0.4862.50.77At5g5460083554950S ribosomal protein L24, chloroplast (CL24)F:structural constituent of ribosome;P:translation;C:chloroplast stroma, chloroplast, large ribosomal subunit;BOMPFO.I.H.G.S.X.
0.3643.60.77At5g65010836625ASN2 (ASPARAGINE SYNTHETASE 2)Encodes asparagine synthetase (ASN2).O.I.H.G.S.X.
0.2930.30.78At1g32470840141glycine cleavage system H protein, mitochondrial, putativeF:glycine dehydrogenase (decarboxylating) activity;P:glycine catabolic process;C:mitochondrion, glycine cleavage complex, chloroplast;BOPMFAO.I.H.G.S.X.
0.2726.20.76At4g24930828595thylakoid lumenal 17.9 kDa protein, chloroplastF:molecular_function unknown;P:biological_process unknown;C:thylakoid, thylakoid lumen, chloroplast thylakoid lumen, chloroplast;PO.I.H.G.S.X.

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Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
89.799.9GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
87.499.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
82.299.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
77.999.9GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
77.599.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
77.499.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
73.199.9GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
72.799.9GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
72.699.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
70.899.9GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
67.899.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
65.899.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
63.999.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.999.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.899.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
59.199.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
52.999.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.299.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.899.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.699.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
42.299.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
39.899.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.299.8GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
36.199.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.199.7GSM133756Lindsey_1-10_heart-stage-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
28.099.7E-MEXP-1443-raw-cel-1581869745
25.199.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
16.399.5GSM131704ATGE_83_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.199.4GSM131705ATGE_83_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.099.4GSM131703ATGE_83_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.899.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.599.4GSM131707ATGE_84_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.599.4E-MEXP-1443-raw-cel-1581869803
14.499.4GSM131708ATGE_84_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
14.099.4GSM131700ATGE_82_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
13.899.4GSM184922Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.299.4GSM131706ATGE_84_AGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
12.699.3GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
12.199.3GSM10454WT Post-Mature Green Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.199.3GSM10456WT Post-Mature Green Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
11.999.3GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
11.899.3GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.699.3GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3GSM131701ATGE_82_BGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.399.3GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
11.299.2GSM131702ATGE_82_CGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
11.099.2GSM133755Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.599.2E-MEXP-711-raw-cel-1563002803
10.299.2GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
10.199.2E-MEXP-711-raw-cel-1563002768
9.999.1GSM133768Lindsey_1-20_torpedo-basal_Rep5_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.299.1E-MEXP-1138-raw-cel-1432773322
8.999.0E-MEXP-1138-raw-cel-1432773258

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0911GO:0006529The chemical reactions and pathways resulting in the formation of asparagine, 2-amino-3-carbamoylpropanoic acid.Link to AmiGO
0.0801GO:0006546The chemical reactions and pathways resulting in the breakdown of glycine, aminoethanoic acid.Link to AmiGO
0.0795GO:0042254The process of the formation of the constituents of the ribosome subunits, their assembly, and their transport to the sites of protein synthesis.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.040503010RibosomeLink to KEGG PATHWAY
0.033100250Alanine, aspartate and glutamate metabolismLink to KEGG PATHWAY
0.032100910Nitrogen 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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