Co-expression analysis

Gene ID At3g28040
Gene name leucine-rich repeat transmembrane protein kinase, putative
Module size 5 genes
NF 0.07
%ile 4.1



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
1.00100.01.00At3g28040822428leucine-rich repeat transmembrane protein kinase, putativeF:protein serine/threonine kinase activity, kinase activity, ATP binding;P:transmembrane receptor protein tyrosine kinase signaling pathway, protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.4050.80.91At4g34220829571leucine-rich repeat transmembrane protein kinase, putativeF:protein binding, protein serine/threonine kinase activity, protein 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.
0.2115.80.90At1g79720844311aspartyl protease family proteinF:aspartic-type endopeptidase activity;P:proteolysis;C:apoplast;PFMOBO.I.H.G.S.X.
0.040.90.90At3g10160820179DFC (DHFS-FPGS HOMOLOG C)Encodes a protein with tetrahydrofolylpolyglutamate synthase activity that is located in the mitochondrial matrix.O.I.H.G.S.X.
0.030.60.90At1g60600842354ABC4 (ABERRANT CHLOROPLAST DEVELOPMENT 4)Encodes a protein similar to 1,4-dihydroxy-2-naphthoic acid phytyltransferase involved in phylloquinone and plastoquinone biosynthesis. Mutants are pale green and heterotrophic with defects in photosynthetic electron transport.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
167.3100.0GSM266667Arabidopsis, root cells, columella root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
91.799.9GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
73.399.9GSM266665Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
56.799.8GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
51.099.8GSM266666Arabidopsis, root cells, columella root cap, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
48.899.8GSM184892Arabidopsis, root cells, columella root cap, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
46.799.8GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
46.399.8GSM265414Arabidopsis, root cells, -Fe, replicate 1GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO
44.199.8GSM173443wild-type Arabidopsis, biological rep2GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
35.999.7GSM173446oxt6 mutant, biological rep2GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
35.399.7GSM173442wild-type Arabidopsis, biological rep1GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
34.999.7GSM173445oxt6 mutant, biological rep1GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
34.299.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
33.099.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.299.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
31.099.7GSM266664Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
29.299.7GSM173444wild-type Arabidopsis, biological rep3GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
29.199.7GSM173447oxt6 mutant, biological rep3GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
28.299.7GSM266662Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 1GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
26.699.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
23.299.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
22.999.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.799.6GSM265415Arabidopsis, root cells, -Fe, replicate 2GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO
22.099.6GSM265416Arabidopsis, root cells, -Fe, replicate 3GSE10496Expression analysis of the effect of protoplasting and FACS sorting in roots exposed to iron deficiency (-Fe)Link to GEO
21.599.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.399.6GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.199.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.699.5GSM266663Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 2GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
18.599.5GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.499.5GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.199.5GSM173448oxt6:AtCPSF30 line 5, biological rep1GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
17.299.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.899.5GSM173449oxt6:AtCPSF30 line 5, biological rep2GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
16.799.5GSM133973Birnbaum_1-3_src5-3_Rep3_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
16.599.5GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.599.5GSM133975Birnbaum_1-5_StageI-2_Rep2_ATH1GSE5749A gene expression map of the Arabidopsis rootLink to GEO
15.399.4GSM252688Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 0 hrs Taking 70 mm of Stump (8 dpg) rep2GSE9996Organ regeneration in plants is independent of stem cell niche activityLink to GEO
14.499.4GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.599.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.199.3GSM252689Regenerating Stump of Root Tip Cut at 130 mm first and then Recut after 0 hrs Taking 70 mm of Stump (8 dpg) rep3GSE9996Organ regeneration in plants is independent of stem cell niche activityLink to GEO
11.999.3GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
10.899.2GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
10.399.2GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
8.999.0GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0010236The chemical reactions and pathways resulting in the formation of plastoquinone, a lipid-soluble electron-transporting coenzyme present in the chloroplast.Link to AmiGO
0.1821GO:0042372The chemical reactions and pathways resulting in the formation of phylloquinone, vitamin K1, a quinone-derived compound synthesized by green plants.Link to AmiGO
0.1671GO:0009772Electrons move from the primary electron acceptor (Quinone, Q) through a chain of electron transport molecules in the thylakoid membrane until they reach the ultimate electron acceptor of Photosystem II, which is plastocyanin (PC). The electron is then passed to the P700 chlorophyll a molecules of the reaction centre of photosystem I.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.067100130Ubiquinone and other terpenoid-quinone biosynthesisLink to KEGG PATHWAY
0.002101100Metabolic pathwaysLink 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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