Co-expression analysis

Gene ID At1g28270
Gene name RALFL4 (ralf-like 4)
Module size 20 genes
NF 0.84
%ile 96.1



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
0.7788.01.00At1g28270839721RALFL4 (ralf-like 4)Member of a diversely expressed predicted peptide family showing sequence similarity to tobacco Rapid Alkalinization Factor (RALF), and is believed to play an essential role in the physiology of Arabidopsis. Consists of a single exon and is characterized by a conserved C-terminal motif and N-terminal signal peptide.O.I.H.G.S.X.
0.9396.40.97At1g69940843331PPME1Encodes a protein with pectin methylesterase activity. The protein expression was shown to be highly restricted to the pollen grain (no detection in any other tissues or in the pollen grains' surrounding cells of the anthers.O.I.H.G.S.X.
0.9396.40.98At3g62170825390VGDH2 (Vanguard 1 homolog 2)F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMOO.I.H.G.S.X.
0.9195.60.98At3g28750822507unknown proteinF:unknown;P:unknown;C:endomembrane system;POO.I.H.G.S.X.
0.9195.60.99At5g14380831289AGP6 (Arabinogalactan proteins 6)Encodes an arabinogalactan protein that is expressed in pollen, pollen sac and pollen tube. Loss of AGP6 function results in decreased fertility due to defects in pollen tube growth.O.I.H.G.S.X.
0.9095.10.98At1g02790839391PGA4 (POLYGALACTURONASE 4)encodes a exopolygalacturonase.O.I.H.G.S.X.
0.8894.00.99At3g01270821142pectate lyase family proteinF:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;PBFOO.I.H.G.S.X.
0.8894.00.98At3g20865821635AGP40 (arabinogalactan-protein 40)Encodes a putative arabinogalactan-protein (AGP40).O.I.H.G.S.X.
0.8894.00.96At1g61563842451RALFL8 (ralf-like 8)Member of a diversely expressed predicted peptide family showing sequence similarity to tobacco Rapid Alkalinization Factor (RALF), and is believed to play an essential role in the physiology of Arabidopsis. Consists of a single exon and is characterized by a conserved C-terminal motif and N-terminal signal peptide.O.I.H.G.S.X.
0.8894.00.98At3g57690824938AGP23 (ARABINOGALACTAN-PROTEIN 23)Encodes a putative arabinogalactan-protein (AGP23).O.I.H.G.S.X.
0.8793.50.97At3g13400820540sks13 (SKU5 Similar 13)F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOAO.I.H.G.S.X.
0.8693.10.97At2g47030819317VGDH1F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFMOO.I.H.G.S.X.
0.8491.90.99At2g47050819319invertase/pectin methylesterase inhibitor family proteinF:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.8491.90.98At1g55570842006sks12 (SKU5 Similar 12)F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOAO.I.H.G.S.X.
0.8391.40.98At3g07820819973polygalacturonase 3 (PGA3) / pectinaseF:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMAO.I.H.G.S.X.
0.8290.90.97At5g45880834628pollen Ole e 1 allergen and extensin family proteinF:molecular_function unknown;P:biological_process unknown;C:extracellular space, endomembrane system;PO.I.H.G.S.X.
0.7888.60.99At4g35010829653BGAL11 (beta-galactosidase 11)putative beta-galactosidase (BGAL11 gene)O.I.H.G.S.X.
0.7888.60.98At5g61720836294unknown proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PMO.I.H.G.S.X.
0.7486.10.99At1g29140839788pollen Ole e 1 allergen and extensin family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.6075.70.98At3g13390820539sks11 (SKU5 Similar 11)F:oxidoreductase activity, copper ion binding;P:unknown;C:endomembrane system;FBPMOAO.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
82.499.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
66.399.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.799.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
52.499.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.199.8GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
44.399.8GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
43.799.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
43.299.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.799.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.599.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.799.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.599.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.299.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.099.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.699.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
35.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.999.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.299.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.699.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.499.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.599.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.799.6E-MEXP-807-raw-cel-1173273170
19.499.6GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
18.799.5E-MEXP-807-raw-cel-1173273116
18.499.5GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.499.5E-MEXP-715-raw-cel-1121836113
15.999.5E-MEXP-807-raw-cel-1173273196
15.599.5E-MEXP-715-raw-cel-1121836247
15.599.5GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.799.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
14.299.4E-MEXP-807-raw-cel-1173273060
14.299.4GSM226547Slice5JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
14.099.4GSM270853Arabidopsis cell culture, 4 h_control_rep2GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
13.299.4E-MEXP-807-raw-cel-1173273088
13.099.4E-MEXP-807-raw-cel-1173273252
12.999.3GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.599.3E-MEXP-715-raw-cel-1121836221
11.699.3E-MEXP-807-raw-cel-1173273144
10.999.2GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
10.599.2GSM25863IAA Treated - 2GSE1491Identification of Inhibitors of Auxin Transcriptional Activation via Chemical Genetics in ArabidopsisLink to GEO
10.599.2GSM270865Arabidopsis cell culture, 4 h_control_rep3GSE10719Response of Arabidopsis cell culture to phytoprostane A1Link to GEO
10.499.2GSM128787Somerville_1-10_stem-GH7_Rep1_ATH1GSE5533Tissue Type Arrays of Columbia-0Link to GEO
10.099.2GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.899.1GSM311290Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
9.599.1GSM311289Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
9.599.1GSM184891Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
9.399.1GSM25862IAA treated - 1GSE1491Identification of Inhibitors of Auxin Transcriptional Activation via Chemical Genetics in ArabidopsisLink to GEO
9.099.1GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.099.1GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.699.0E-MEXP-807-raw-cel-1173273223

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0702GO:0007267Any process that mediates the transfer of information from one cell to another.Link to AmiGO
0.0562GO:0009860Growth of pollen via tip extension of the intine wall.Link to AmiGO
0.0482GO:0042545The series of events leading to chemical and structural alterations of an existing cell wall that can result in loosening, increased extensibility or disassembly.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.077200040Pentose and glucuronate interconversionsLink to KEGG PATHWAY
0.038200500Starch and sucrose metabolismLink to KEGG PATHWAY
0.038100053Ascorbate and aldarate 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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