Co-expression analysis

Gene ID At4g02280
Gene name SUS3 (sucrose synthase 3)
Module size 47 genes
NF 0.76
%ile 92.6



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
0.8290.91.00At4g02280828081SUS3 (sucrose synthase 3)Encodes a protein with sucrose synthase activity (SUS3).O.I.H.G.S.X.
0.9496.70.87At2g19900816509ATNADP-ME1 (NADP-malic enzyme 1)The malic enzyme (EC 1.1.1.40) encoded by AtNADP-ME1 is expressed in response to developmental and cell-specific signals.O.I.H.G.S.X.
0.9195.60.80At1g02700839492unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PMFOO.I.H.G.S.X.
0.9195.60.78At1g27990839692unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8894.00.78At5g42290834234transcription activator-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.8894.00.76At4g27530828862unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8894.00.75At5g607608361972-phosphoglycerate kinase-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMPBAFVO.I.H.G.S.X.
0.8693.10.71At2g42560818856late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;BOMPFVAO.I.H.G.S.X.
0.8693.10.81At5g45310834567unknown proteinF:unknown;P:unknown;C:endomembrane system;OMVBFPAO.I.H.G.S.X.
0.8592.40.75At3g05260819690short-chain dehydrogenase/reductase (SDR) family proteinF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.8491.90.77At5g55750835669hydroxyproline-rich glycoprotein family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOFBVAO.I.H.G.S.X.
0.8491.90.74At4g21020827849late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:unknown;OMBPFVAO.I.H.G.S.X.
0.8391.40.78At3g11050820276ATFER2 (ferritin 2)F:oxidoreductase activity, ferric iron binding, binding, transition metal ion binding;P:response to oxidative stress, cellular iron ion homeostasis, response to abscisic acid stimulus, iron ion transport;C:chloroplast;MBPOAFO.I.H.G.S.X.
0.8391.40.78At1g75490843885DNA binding / transcription factorencodes a member of the DREB subfamily A-2 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are eight members in this subfamily including DREB2A AND DREB2B that are involved in response to drought.O.I.H.G.S.X.
0.8391.40.72At3g22500821821ATECP31late embryogenesis abundant (LEA) proteinO.I.H.G.S.X.
0.8391.40.76At3g58450825014universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAOFMO.I.H.G.S.X.
0.8290.90.72At2g19320816449unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.8290.90.75At2g23640816896reticulon family protein (RTNLB13)F:molecular_function unknown;P:biological_process unknown;C:endoplasmic reticulum;MPOO.I.H.G.S.X.
0.8190.40.71At4g18650827599transcription factor-relatedF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO.I.H.G.S.X.
0.8190.40.78At4g09600826545GASA3 (GAST1 PROTEIN HOMOLOG 3)One of GASA gene family which is related to a GA-stimulated transcript (GAST) from tomato.O.I.H.G.S.X.
0.8089.80.72At2g23110816843-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7989.10.78At5g43770834399proline-rich family proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MBPOFVAO.I.H.G.S.X.
0.7989.10.75At4g09610826546GASA2 (GAST1 PROTEIN HOMOLOG 2)F:molecular_function unknown;P:response to gibberellin stimulus;C:endomembrane system;PO.I.H.G.S.X.
0.7888.60.76At5g22470832308NAD+ ADP-ribosyltransferaseF:NAD+ ADP-ribosyltransferase activity;P:protein amino acid ADP-ribosylation;C:intracellular, nucleus;MOPFBVO.I.H.G.S.X.
0.7888.60.73At3g12960820482unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.7888.60.76At3g61040825276CYP76C7encodes a protein with cytochrome P450 domainO.I.H.G.S.X.
0.7788.00.76At4g10020826593AtHSD5 (hydroxysteroid dehydrogenase 5)F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:endomembrane system;BOMFPAVO.I.H.G.S.X.
0.7586.90.73At2g42000818800plant EC metallothionein-like family 15 proteinF:zinc ion binding;P:biological_process unknown;C:unknown;PMOBFO.I.H.G.S.X.
0.7486.10.76At3g50980824262XERO1 (DEHYDRIN XERO 1)F:molecular_function unknown;P:response to water, response to stress;C:cellular_component unknown;PMO.I.H.G.S.X.
0.7486.10.75At2g28420817390lactoylglutathione lyase family protein / glyoxalase I family proteinF:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:cellular_component unknown;BOPMFAO.I.H.G.S.X.
0.7486.10.74At3g51810824344EM1 (LATE EMBRYOGENESIS ABUNDANT 1)Encodes a ABA-inducible protein that accumulates during seed maturation, in parallel with its corresponding mRNA but with a 3 d delay. During germination, AtEm1 protein undergoes two successive cleavages before being degraded. Both proteins are more stable than the corresponding mRNA. The gene can be activated by the basic leucine zipper transcription factor ABI5. Expressed predominantly in provascular tissues with the strongest expression in the root tip.O.I.H.G.S.X.
0.7385.50.81At5g47810834832PFK2 (PHOSPHOFRUCTOKINASE 2)F:6-phosphofructokinase activity;P:glycolysis;C:cytosol, 6-phosphofructokinase complex;BOMFPAVO.I.H.G.S.X.
0.7385.50.76At5g55240835617caleosin-related family protein / embryo-specific protein, putativeF:calcium ion binding;P:biological_process unknown;C:cellular_component unknown;PFOO.I.H.G.S.X.
0.7385.50.81At3g17520821017late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:endomembrane system;MOBFPVAO.I.H.G.S.X.
0.7184.20.77At1g24735839082O-methyltransferaseF:O-methyltransferase activity;P:unknown;C:cytosol;BOPMFAO.I.H.G.S.X.
0.6982.90.77At1g29680839845unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.6882.20.76At5g16460831507-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFOO.I.H.G.S.X.
0.6882.20.76At5g01300830983phosphatidylethanolamine-binding family proteinF:phosphatidylethanolamine binding;P:biological_process unknown;C:cellular_component unknown;BOAPFO.I.H.G.S.X.
0.6882.20.76At2g33520817917-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.6882.20.74At1g72100843541late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:endomembrane system;BPOMFAVO.I.H.G.S.X.
0.6781.60.74At2g21820816718unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.6781.60.74At3g56350824802superoxide dismutase (Mn), putative / manganese superoxide dismutase, putativeF:superoxide dismutase activity, metal ion binding;P:superoxide metabolic process, removal of superoxide radicals;C:mitochondrion, endomembrane system;BOFMPAVO.I.H.G.S.X.
0.6277.30.74At5g45690834608unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPFO.I.H.G.S.X.
0.6176.70.71At1g54870841926binding / catalytic/ oxidoreductaseF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.6176.70.73At4g31830829312unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5974.70.71At4g16160827308mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family proteinHomologous to pea OEP16 and barley pPORA (OEP16), a member of Arabidopsis OEP16 family. Two OEP16 genes are closely related to each other and are conserved in all land plants, OEP16-2, also named OEP16-S, and OEP16-1 (renamed OEP16-L) are result of the gene duplication event that occurred prior to divergence of bryophytes and seed plants. Predominantly expressed in seed and is not inducible by cold treatment. atOEP16-S gained an additional exon. The promoter region of atOEP16-S (but not atOEP16-L) contains multiple G-box ABA-responsive elements. The atOEP16-S promoter conferred developmentally regulated seed- and pollen-specific GUS expression in tobacco.O.I.H.G.S.X.
0.5873.80.71At1g05510837053-Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.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
118.799.9GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
104.699.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
63.799.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.499.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.299.8GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
49.599.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.299.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.399.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.299.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
46.099.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.099.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.999.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
44.499.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.799.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.599.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.599.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.399.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.999.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.699.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.399.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.199.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.399.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.099.6GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
22.699.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
21.599.6GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.899.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.399.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
18.399.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.699.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.699.4E-MEXP-1443-raw-cel-1581869573
13.599.4E-MEXP-1344-raw-cel-1559561563
12.399.3E-MEXP-1345-raw-cel-1559561139
11.599.3E-MEXP-1345-raw-cel-1559561169
10.599.2GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.099.2E-MEXP-1345-raw-cel-1559561229
9.699.1E-MEXP-1344-raw-cel-1559561593
9.399.1E-MEXP-1345-raw-cel-1559561259
9.399.1E-MEXP-1345-raw-cel-1559561289
9.199.1E-MEXP-1344-raw-cel-1559561683
9.099.1E-MEXP-1345-raw-cel-1559561199
8.799.0E-MEXP-1443-raw-cel-1581869515

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0421GO:0006801The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.Link to AmiGO
0.0401GO:0006471The transfer, from NAD, of ADP-ribose to protein amino acids.Link to AmiGO
0.0361GO:0005985The chemical reactions and pathways involving sucrose, the disaccharide fructofuranosyl-glucopyranoside.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.032100941Flavonoid biosynthesisLink to KEGG PATHWAY
0.018100620Pyruvate metabolismLink to KEGG PATHWAY
0.018100945Stilbenoid, diarylheptanoid and gingerol biosynthesisLink 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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