Co-expression analysis

Gene ID At1g76500
Gene name SOB3 (SUPPRESSOR OF PHYB-4#3)
Module size 5 genes
NF 0.09
%ile 5.8



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
0.2115.81.00At1g76500843983SOB3 (SUPPRESSOR OF PHYB-4#3)Encodes an AT hook domain containing protein. Identified in a screen of activation tagged lines that suppress the long-hypocotyl phenotype of a weak phyB allele. Affects cell elongation in the hypocotyl and leaves.Acts redundantly with ESC to modulate hypocotyl growth inhibition in response to lightO.I.H.G.S.X.
0.1811.40.74At4g38210829977ATEXPA20 (ARABIDOPSIS THALIANA EXPANSIN A20)expansin -like protein. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.O.I.H.G.S.X.
0.1710.20.76At5g27410832800aminotransferase class IV family proteinF:catalytic activity;P:metabolic process;C:cellular_component unknown;OBPAFMO.I.H.G.S.X.
0.040.90.75At1g08590837381CLAVATA1 receptor kinase (CLV1)similar to CLV1-like leucine rich repeat transmembrane receptor-like protein kinase (Ipomoea nil) (U77888)O.I.H.G.S.X.
0.030.60.76At2g45430819151DNA-binding protein-relatedF:unknown;P:biological_process unknown;C:unknown;PMFBOO.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
74.099.9GSM311284Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
47.699.8GSM284398Arabidopsis GGSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
43.399.8GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
38.999.8GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
36.099.7GSM284397Arabidopsis GGSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
22.999.6GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
20.199.6GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
19.899.6E-MEXP-1138-raw-cel-1432772970
18.899.5GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
17.999.5E-MEXP-1138-raw-cel-1432772938
17.899.5E-MEXP-1138-raw-cel-1432773002
17.799.5E-MEXP-1138-raw-cel-1432773322
17.499.5E-MEXP-1138-raw-cel-1432773034
17.399.5E-MEXP-1138-raw-cel-1432772778
16.699.5E-MEXP-1138-raw-cel-1432773194
16.499.5E-MEXP-1138-raw-cel-1432772874
16.499.5E-ATMX-35-raw-cel-1574334848
15.999.5GSM311283Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
15.799.5E-MEXP-1138-raw-cel-1432772842
15.299.4GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
15.299.4E-MEXP-1138-raw-cel-1432773386
15.299.4E-MEXP-1138-raw-cel-1432772746
14.999.4GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.999.4E-MEXP-1138-raw-cel-1432773130
14.999.4E-MEXP-1138-raw-cel-1432772810
14.799.4E-MEXP-1138-raw-cel-1432773258
14.599.4E-MEXP-1138-raw-cel-1432773098
14.599.4E-MEXP-1138-raw-cel-1432773226
14.299.4E-MEXP-1138-raw-cel-1432773066
14.299.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.199.4GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.199.4E-MEXP-1138-raw-cel-1432772906
14.199.4E-MEXP-1138-raw-cel-1432772650
14.099.4E-MEXP-1138-raw-cel-1432773354
13.699.4GSM106969opr3_OPDA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
13.699.4E-MEXP-1138-raw-cel-1432772522
13.699.4E-MEXP-1138-raw-cel-1432773290
13.599.4E-MEXP-1138-raw-cel-1432772618
13.599.4E-MEXP-1138-raw-cel-1432772714
13.599.4GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
13.299.4E-ATMX-35-raw-cel-1574334880
13.199.4GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.999.3GSM106923opr3_OPDA_2 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
12.899.3GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.899.3E-MEXP-1138-raw-cel-1432772586
12.899.3E-MEXP-1138-raw-cel-1432773162
12.699.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.499.3E-ATMX-35-raw-cel-1574334864
12.399.3GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.299.3GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
12.299.3GSM106910opr3_JA_2 hrs_rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.799.3E-MEXP-1138-raw-cel-1432772554
11.699.3E-MEXP-1138-raw-cel-1432772682
11.599.3GSM106920opr3_OPDA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
11.499.3GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
11.099.2GSM106913opr3_JA_8 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.999.2GSM106922opr3_OPDA_2 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.999.2GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.899.2GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.899.2GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.899.2GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.899.2GSM106973ws_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.799.2E-MEXP-285-raw-cel-440782791
10.699.2GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.599.2GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.499.2GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.499.2GSM106907opr3_JA_0.5 hr_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.499.2GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
10.399.2GSM106924opr3_OPDA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
10.299.2GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.199.2GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.899.1GSM106914opr3_JA_8 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.899.1GSM311285Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
9.899.1GSM106967opr3_OPDA_22 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.799.1GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.599.1E-MEXP-285-raw-cel-440782725
9.499.1GSM106970opr3_OPDA_22 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.499.1GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.299.1GSM106911opr2_JA_2 hrs_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.199.1GSM106921opr3_OPDA_0.5 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.999.0GSM106828opr3_0 hr_Rep3GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.899.0GSM10480lec1-1 Cotyledon Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
8.899.0GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
8.799.0GSM106916opr3_JA_22 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.699.0GSM106912opr3_JA 8hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.699.0GSM106915opr3_JA_22 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
8.699.0GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0009647The control of plant growth, development, and differentiation in response to growth in darkness.Link to AmiGO
0.1051GO:0006949The formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane. Syncytia are normally derived from single cells that fuse or fail to complete cell division.Link to AmiGO
0.0892GO:0009640The control of plant growth, development, and differentiation by the duration and nature of light, independent of photosynthesis.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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