Co-expression analysis

Gene ID At3g13065
Gene name SRF4 (STRUBBELIG-RECEPTOR FAMILY 4)
Module size 8 genes
NF 0.48
%ile 67.4



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
1.00100.01.00At3g13065820494SRF4 (STRUBBELIG-RECEPTOR FAMILY 4)F:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;PMOBFVAO.I.H.G.S.X.
0.6781.60.97At4g38230829980CPK26member of Calcium Dependent Protein KinaseO.I.H.G.S.X.
0.5773.80.96At3g62640825438unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5065.30.96At4g07960826301ATCSLC12 (CELLULOSE-SYNTHASE LIKE C12)encodes a gene similar to cellulose synthaseO.I.H.G.S.X.
0.4355.30.96At1g79860844325ROPGEF12 (RHO GUANYL-NUCLEOTIDE EXCHANGE FACTOR 12)Encodes a member of KPP-like gene family, homolog of KPP (kinase partner protein) gene in tomato. Also a member of the RopGEF (guanine nucleotide exchange factor) family, containing the novel PRONE domain (plant-specific Rop nucleotide exchanger), which is exclusively active towards members of the Rop subfamily. Coexpression of AtPRK2a with AtRopGEF12 resulted in isotropic pollen tube growth Growth.O.I.H.G.S.X.
0.2726.20.96At5g25340832606unknown proteinF:molecular_function unknown;P:unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.2014.40.96At1g13970837957unknown proteinF:molecular_function unknown;P:N-terminal protein myristoylation;C:unknown;POFMO.I.H.G.S.X.
0.2014.40.97At5g15110831363lyase/ pectate lyaseF:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;PBFOO.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
165.8100.0E-ATMX-31-raw-cel-1516947916
108.299.9GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
59.099.8GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
53.299.8GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
51.099.8GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
47.299.8GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
42.199.8GSM134301Penfield_1-3_endosperm-control_Rep3_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
36.399.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
34.699.7E-MEXP-285-raw-cel-440783152
33.999.7E-MEXP-285-raw-cel-440783213
32.899.7E-ATMX-31-raw-cel-1516947882
32.599.7GSM134300Penfield_1-2_endosperm-control_Rep2_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
31.699.7GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
28.599.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.699.7GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
25.599.7GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
25.399.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.299.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.299.6GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
25.299.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.999.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.699.6GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
24.199.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.199.6E-ATMX-31-raw-cel-1516947899
23.899.6GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.099.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.899.6GSM134299Penfield_1-1_endosperm-control_Rep1_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
22.799.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.599.6GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
21.499.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.099.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.899.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.199.6GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
17.599.5GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.499.5GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.499.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.499.5GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.699.4GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.499.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.399.4GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
14.399.4GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
13.599.4GSM106919opr3_OPDA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
13.199.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.699.3E-MEXP-715-raw-cel-1121836247
12.599.3GSM106833opr3_JA_0.5 hr_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.499.3GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
12.299.3GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.299.3GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
12.099.3E-MEXP-715-raw-cel-1121836361
11.999.3E-MEXP-1138-raw-cel-1432773386
11.699.3E-MEXP-1138-raw-cel-1432773354
11.699.3E-MEXP-1138-raw-cel-1432773226
11.499.3E-MEXP-1138-raw-cel-1432773162
11.399.3E-MEXP-715-raw-cel-1121836334
11.299.2GSM133957Fukuda_1-2_0B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
11.099.2E-MEXP-715-raw-cel-1121836221
10.999.2E-MEXP-1138-raw-cel-1432772682
10.799.2GSM147966lec1-1 Globular Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
10.599.2E-MEXP-1138-raw-cel-1432772938
10.499.2GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
10.299.2E-MEXP-1138-raw-cel-1432773194
10.199.2GSM9630arf2-6_+IAA_1GSE630Auxin-mediated gene expressionLink to GEO
10.099.2GSM133961Fukuda_1-6_4B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
9.999.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
9.699.1E-MEXP-715-raw-cel-1121836087
9.599.1GSM25877IAA/B Treated - 2GSE1491Identification of Inhibitors of Auxin Transcriptional Activation via Chemical Genetics in ArabidopsisLink to GEO
9.399.1E-MEXP-1138-raw-cel-1432773002
9.299.1GSM147965lec1-1 Globular Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
9.099.1GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.999.0GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.899.0GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
8.899.0E-MEXP-715-raw-cel-1121836113
8.799.0GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.699.0GSM106920opr3_OPDA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.699.0E-ATMX-35-raw-cel-1574334880
8.699.0GSM9632arf2-6_+IAA_2GSE630Auxin-mediated gene expressionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0341GO:0009860Growth of pollen via tip extension of the intine wall.Link to AmiGO
0.0141GO:0007169The series of molecular signals generated as a consequence of a transmembrane receptor tyrosine kinase binding to its physiological ligand.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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