Co-expression analysis

Gene ID At5g55170
Module size 5 genes
NF 0.43
%ile 60.8

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
0.4050.81.00At5g55170835610SUMO3 (SMALL UBIQUITIN-LIKE MODIFIER 3)Encodes a small ubiquitin-like modifier (SUMO) polypeptide that becomes covalently attached to various intracellular protein targets, much like ubiquitination, leading to post-translational modification of those targets.O.I.H.G.S.X.
0.6781.60.84At4g30640829187F-box family protein (FBL19)F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;MPFOBO.I.H.G.S.X.
0.4050.80.88At3g09490820106chloroplast lumen common family proteinF:binding;P:photosynthesis, light reaction;C:chloroplast thylakoid lumen;BOAPMO.I.H.G.S.X.
0.4050.80.82At4g20110827757vacuolar sorting receptor, putativeF:calcium ion binding;P:intracellular protein transport, N-terminal protein myristoylation, protein targeting to vacuole;C:trans-Golgi network, integral to plasma membrane, Golgi transport complex, membrane;MOPBFAO.I.H.G.S.X.
0.3643.60.83At5g61250836246AtGUS1 (Arabidopsis thaliana glucuronidase 1)Belongs to the plant glycoside hydrolase family 79. Encodes a protein with several posttranslational modification sites including O-β-GlcNAc attachment sites and serine-, threonine- and tyrosine-phosphorylation sites, suggesting that this protein is extensively modified posttranslationally. The protein is predicted (WoLF PSORT program) to be secreted.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
516.7100.0GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
142.799.9GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
83.299.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
71.299.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.999.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.599.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
63.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
56.799.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.799.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
47.399.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.499.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.999.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.999.8GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.699.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.099.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.799.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.699.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
27.299.7GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
26.599.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.399.6GSM134204Murray_3-2_D3-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
19.699.6GSM142907WW002_ATH1_A2-willa-ISOX-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
18.499.5GSM142905WW002_ATH1_A1-willa-CON-REP3GSE6181Assembly of the cell wall pectic matrix.Link to GEO
17.599.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.499.5GSM142906WW002_ATH1_A2-willa-ISOX-REP2GSE6181Assembly of the cell wall pectic matrix.Link to GEO
16.199.5GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
14.199.4GSM133813Diamond_A-2-Diamo-met_SLDGSE5735Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)Link to GEO
11.099.2GSM284395Arabidopsis GPSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.399.2GSM134208Murray_3-4_D7-GROWTH_Rep1_ATH1GSE5750Growth of suspension-cultured cellsLink to GEO
10.299.2GSM133815Diamond_A-4-Diamo-met_SLDGSE5735Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)Link to GEO
9.399.1GSM133809Diamond_A-2-Diamo-fum_SLDGSE5735Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)Link to GEO
9.399.1GSM311282Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.899.0GSM133810Diamond_A-3-Diamo-fum_SLDGSE5735Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1541GO:0016925The process by which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.Link to AmiGO
0.0951GO:0019684The light reactions of photosynthesis, which take place in photosystems II and I. Light energy is harvested and used to power the transfer of electrons among a series of electron donors and acceptors. The final electron acceptor is NADP+, which is reduced to NADPH. NADPH generated from light reactions is used in sugar synthesis in dark reactions. Light reactions also generate a proton motive force across the thylakoid membrane, and the proton gradient is used to synthesize ATP. There are two chemical reactions involved in the light reactions: water oxidation in photosystem II, and NADP reduction in photosystem I.Link to AmiGO
0.0831GO:0006623The process of directing proteins towards the vacuole, usually using signals contained within the protein.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.

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