Co-expression analysis

Gene ID At4g03510
Gene name RMA1
Module size 8 genes
NF 0.55
%ile 76.6



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
0.3948.41.00At4g03510825654RMA1RMA1 encodes a novel 28 kDa protein with a RING finger motif and a C-terminal membrane-anchoring domain that is involved in the secretory pathway.O.I.H.G.S.X.
0.7184.20.83At5g20250832147DIN10 (DARK INDUCIBLE 10)encodes a member of glycosyl hydrolase family 36. Expression is induced within 3 hours of dark treatment, in senescing leaves and treatment with exogenous photosynthesis inhibitor. Induction of gene expression was suppressed in excised leaves supplied with sugar. The authors suggest that the gene's expression pattern is responding to the level of sugar in the cell.O.I.H.G.S.X.
0.7184.20.85At5g19120832032aspartic-type endopeptidaseF:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;PFO.I.H.G.S.X.
0.6781.60.82At5g22920832356zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MPOFBAO.I.H.G.S.X.
0.6378.10.82At1g11260837667STP1 (SUGAR TRANSPORTER 1)Encodes a H+/hexose cotransporter.O.I.H.G.S.X.
0.6075.70.83At2g30600817610BTB/POZ domain-containing proteinF:protein binding;P:cell adhesion;C:cellular_component unknown;MPOVFO.I.H.G.S.X.
0.4457.20.84At5g211708322435'-AMP-activated protein kinase beta-2 subunit, putativeF:AMP-activated protein kinase activity;P:N-terminal protein myristoylation;C:chloroplast;MFPOBO.I.H.G.S.X.
0.3643.60.81At1g80440844383kelch repeat-containing F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPBOFAO.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
46.599.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
38.599.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
36.799.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.799.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.599.7E-MEXP-849-raw-cel-1181980982
33.199.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.499.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.999.7GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
28.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.199.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
28.099.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.899.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.599.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.399.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.399.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
21.699.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.399.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.099.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.299.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.299.6E-MEXP-449-raw-cel-676423253
19.299.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.099.5GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.499.5GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.299.5GSM339546Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -8GSE13469Environmental regulation of leaf colour in red 35S:PAP1 ArabidopsisLink to GEO
16.899.5E-MEXP-285-raw-cel-440783213
16.699.5GSM147963WT Globular Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
16.499.5E-MEXP-285-raw-cel-440783152
16.199.5GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.199.4GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.599.4GSM147964WT Globular Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
14.599.4GSM147965lec1-1 Globular Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
13.599.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.899.3GSM284398Arabidopsis GGSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.799.2GSM133820Yang_1-5_young-pod_Rep3_ATH1GSE5736To identify changes in gene expression during silique senescence in Arabidopsis thalianaLink to GEO
10.299.2GSM147966lec1-1 Globular Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
9.799.1GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.499.1GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
9.299.1GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
8.999.0GSM131688ATGE_77_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
8.899.0GSM184552Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.799.0GSM131689ATGE_77_EGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0032527The directed movement of proteins from the endoplasmic reticulum.Link to AmiGO
0.1821GO:0032940The controlled release of a substance by a cell.Link to AmiGO
0.1541GO:0043562A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of inorganic nitrogen.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.019104120Ubiquitin mediated proteolysisLink 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



Back to the CoP portal site

Back to the KAGIANA project homepage