Co-expression analysis

Gene ID At5g63180
Gene name pectate lyase family protein
Module size 11 genes
NF 0.19
%ile 17.3



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
1.00100.01.00At5g63180836439pectate lyase family proteinF:lyase activity, pectate lyase activity;P:biological_process unknown;C:unknown;BPFOO.I.H.G.S.X.
0.3338.10.84At3g09050820058unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast thylakoid membrane, chloroplast;MPOBAFO.I.H.G.S.X.
0.3235.70.84At5g36700833635PGLP1 (2-PHOSPHOGLYCOLATE PHOSPHATASE 1)F:phosphoglycolate phosphatase activity;P:metabolic process;C:chloroplast stroma, chloroplast;BOMFAPO.I.H.G.S.X.
0.2726.20.84At3g54050824572fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putativeF:fructose 1,6-bisphosphate 1-phosphatase activity, phosphoric ester hydrolase activity;P:response to cold, fructose metabolic process;C:apoplast, stromule, chloroplast stroma, chloroplast;BOMPFAO.I.H.G.S.X.
0.2624.40.84At2g36430818217unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2319.30.84At1g32060840098PRK (PHOSPHORIBULOKINASE)F:protein binding, phosphoribulokinase activity, ATP binding;P:response to cold, defense response to bacterium, peptidyl-cysteine S-nitrosylation, biosynthetic process;C:in 8 components;BPOMFAVO.I.H.G.S.X.
0.2217.50.84At5g58260835938-Encodes subunit NDH-N of NAD(P)H:plastoquinone dehydrogenase complex (Ndh complex) present in the thylakoid membrane of chloroplasts. This subunit is thought to be required for Ndh complex assembly.O.I.H.G.S.X.
0.1811.40.84At1g73655843700FK506 binding / peptidyl-prolyl cis-trans isomeraseF:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:chloroplast;BOPMFO.I.H.G.S.X.
0.168.80.84At4g36540829806BEE2 (BR Enhanced Expression 2)F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PFMOO.I.H.G.S.X.
0.092.80.85At5g57930835904APO2 (ACCUMULATION OF PHOTOSYSTEM ONE 2)ACCUMULATION OF PHOTOSYSTEM ONE 2O.I.H.G.S.X.
0.082.30.84At1g20810838672immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family proteinF:FK506 binding, peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:thylakoid lumen, chloroplast thylakoid lumen, chloroplast;BOPMFO.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
136.199.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
132.399.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
129.399.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
124.899.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
103.799.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
93.399.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
84.599.9GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
81.499.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
81.499.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
81.399.9GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
81.299.9GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
79.599.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
79.199.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
77.799.9GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
76.199.9GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
75.699.9GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
73.399.9GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
70.399.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
69.099.9GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
62.899.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
61.599.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.499.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.799.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.499.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.399.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
32.399.7GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
30.199.7GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
27.799.7GSM226536L6SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
26.999.7GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
25.499.6GSM184891Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.799.6GSM184889Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
17.999.5GSM184890Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
17.999.5E-ATMX-35-raw-cel-1574334880
16.299.5E-ATMX-35-raw-cel-1574334864
13.699.4E-MEXP-1138-raw-cel-1432772746
13.499.4E-MEXP-1138-raw-cel-1432772874
13.299.4GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
13.299.4GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.999.3GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
12.599.3E-MEXP-1138-raw-cel-1432772842
12.499.3E-MEXP-1138-raw-cel-1432772714
12.299.3GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
12.299.3GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
12.099.3E-ATMX-33-raw-cel-1562596241
11.599.3GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.499.3GSM128677Underwood_1-30_DC3000-10e8-7h_Rep3_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
10.799.2E-ATMX-33-raw-cel-1562596197
10.799.2E-MEXP-546-raw-cel-863289424
10.499.2GSM218292At_Standard_cpctry-2GSE8787Expression analysis of the salt stress response in Arabidopsis mutants with defects in hair patterningLink to GEO
10.299.2GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.299.2GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.299.2GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.199.2E-MEXP-546-raw-cel-863289586
10.099.2GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.699.1GSM142837MG001_ATH1_A16-Torres-6N1GSE6176Impact of Type III effectors on plant defense responsesLink to GEO
9.499.1E-MEXP-1138-raw-cel-1432773002
9.399.1GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.299.1E-MEXP-1138-raw-cel-1432773098
9.299.1E-MEXP-1138-raw-cel-1432772586
9.199.1GSM266662Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
9.199.1E-MEXP-1138-raw-cel-1432772554
9.199.1GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.099.1E-MEXP-1138-raw-cel-1432772810
8.999.0GSM266671Arabidopsis, root cells, cortex, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1431GO:0006000The chemical reactions and pathways involving fructose, the ketohexose arabino-2-hexulose. Fructose exists in a open chain form or as a ring compound. D-fructose is the sweetest of the sugars and is found free in a large number of fruits and honey.Link to AmiGO
0.1431GO:0010258The aggregation, arrangement and bonding together of a set of components to form NADH:plastoquinone dehydrogenase complex, which is involved in the non-photochemical reduction of plastoquinones, as well as the cyclic electron transport around photosystem I.Link to AmiGO
0.0161GO:0009058The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.047200710Carbon fixation in photosynthetic organismsLink to KEGG PATHWAY
0.036100051Fructose and mannose metabolismLink to KEGG PATHWAY
0.032100030Pentose phosphate pathwayLink 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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