Co-expression analysis

Gene ID At3g14120
Gene name -
Module size 29 genes
NF 0.41
%ile 57.3



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
0.6378.11.00At3g14120820629-F:molecular_function unknown;P:transport;C:nuclear pore;MFPOO.I.H.G.S.X.
0.5974.70.92At5g26710832718glutamate-tRNA ligase, putative / glutamyl-tRNA synthetase, putatuve / GluRS, putativeF:glutamate-tRNA ligase activity;P:glutamyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMFAPO.I.H.G.S.X.
0.5773.80.92At3g02650821285pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.5773.80.92At3g20050821544ATTCP-1Encodes a putative cytoplasmic chaperonin that is similar to mouse Tcp-1 (t complex polypeptide 1).O.I.H.G.S.X.
0.5166.30.92At3g02530821160chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:response to cadmium ion;C:membrane, cytoplasm;BOMFPAO.I.H.G.S.X.
0.5166.30.92At5g20890832213chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:anchored to plasma membrane, cell wall;BOMFPAO.I.H.G.S.X.
0.4963.50.92At1g24510839066T-complex protein 1 epsilon subunit, putative / TCP-1-epsilon, putative / chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:plasma membrane;BOMFPAO.I.H.G.S.X.
0.4659.80.92At1g55890842039pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:mitochondrion;POMFBAO.I.H.G.S.X.
0.4558.30.92At5g14520831303pescadillo-relatedF:transcription coactivator activity;P:cell proliferation;C:nucleolus, intracellular;MFOPO.I.H.G.S.X.
0.4457.20.91At4g10320826624isoleucyl-tRNA synthetase, putative / isoleucine--tRNA ligase, putativeF:isoleucine-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, ATP binding;P:response to cadmium ion, tRNA aminoacylation for protein translation;C:cytosol;OBAMFPO.I.H.G.S.X.
0.4253.90.92At3g13160820505pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:mitochondrion, membrane;POMFBAO.I.H.G.S.X.
0.4253.90.91At3g62940825469OTU-like cysteine protease family proteinF:cysteine-type peptidase activity;P:biological_process unknown;C:cellular_component unknown;OMFBPVAO.I.H.G.S.X.
0.4152.40.92At5g22330832293RIN1 (RESISTANCE TO PSEUDOMONAS SYRINGAE PV MACULICOLA INTERACTOR 1)F:protein binding;P:defense response to fungus, incompatible interaction, meristem development;C:nucleolus, nucleus, chloroplast;BOMFAPO.I.H.G.S.X.
0.4152.40.92At4g11420826746EIF3A (EUKARYOTIC TRANSLATION INITIATION FACTOR 3A)Encodes a subunit of eukaryotic initiation factor 3 (eIF3), a multisubunit complex that is required for binding of mRNA to 40 S ribosomal subunits, stabilization of ternary complex binding to 40 S subunits, and dissociation of 40 and 60 S subunits.O.I.H.G.S.X.
0.4152.40.91At5g23250832389succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putativeF:succinate-CoA ligase (ADP-forming) activity, succinate-CoA ligase (GDP-forming) activity, binding, ATP citrate synthase activity, catalytic activity;P:metabolic process;C:mitochondrion;OBMAFPO.I.H.G.S.X.
0.4050.80.92At1g53645841801hydroxyproline-rich glycoprotein family proteinF:unknown;P:unknown;C:unknown;MOFPBVAO.I.H.G.S.X.
0.4050.80.92At2g22400816771NOL1/NOP2/sun family proteinF:unknown;P:unknown;C:cellular_component unknown;BOMFAPO.I.H.G.S.X.
0.3948.40.93At1g26460839187pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POFMO.I.H.G.S.X.
0.3846.70.92At3g03960819549chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:membrane;BOMFAPO.I.H.G.S.X.
0.3846.70.93At3g62310825404RNA helicase, putativeF:RNA helicase activity, helicase activity, ATP binding, nucleic acid binding;P:unknown;C:nucleolus;MBOFVPAO.I.H.G.S.X.
0.3439.80.91At4g28200828935-F:molecular_function unknown;P:RNA processing;C:intracellular;FMOPO.I.H.G.S.X.
0.3439.80.93At1g64550842763ATGCN3member of GCN subfamilyO.I.H.G.S.X.
0.3439.80.92At1g04190839442tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMPFAO.I.H.G.S.X.
0.3439.80.91At5g51120835186PABN1 (POLYADENYLATE-BINDING PROTEIN 1)Encodes a homolog of the protein PABN1, a polyadenylation factor subunit.O.I.H.G.S.X.
0.3338.10.91At3g11830820356chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:response to cadmium ion;C:cellular_component unknown;BOMFPAO.I.H.G.S.X.
0.3133.80.91At1g25350839120OVA9 (ovule abortion 9)F:glutamine-tRNA ligase activity;P:glutamyl-tRNA aminoacylation, translation, ovule development;C:cytosol;BOMFAPO.I.H.G.S.X.
0.2930.30.93At1g16870838258mitochondrial 28S ribosomal protein S29-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.2830.30.92At2g20060816525ribosomal protein L4 family proteinF:structural constituent of ribosome;P:translation;C:ribosome, intracellular, chloroplast, large ribosomal subunit;BOMFAPO.I.H.G.S.X.
0.2830.30.91At5g64420836563DNA polymerase V familyF:DNA-directed DNA polymerase activity, DNA binding;P:DNA replication, transcription;C:cellular_component unknown;MOFBPVO.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
66.899.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
56.499.8GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
54.799.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.599.8GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
41.299.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
40.599.8GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
38.899.8GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
36.099.7GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
35.799.7GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
35.199.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
34.699.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.399.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.199.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.899.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.599.7GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
29.699.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.199.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
28.399.7GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
28.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.399.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.799.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
26.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.999.7GSM311279Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
25.499.6GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
25.299.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.099.6GSM311280Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
25.099.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.999.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.799.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.599.6GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.499.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
23.699.6GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
22.599.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
21.999.6GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
21.499.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.699.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
18.899.5GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
18.199.5GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
14.499.4GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
14.099.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.299.2GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.099.2GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1954GO:0044267The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes protein modification.Link to AmiGO
0.1182GO:0006424The process of coupling glutamate to glutamyl-tRNA, catalyzed by glutamyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'- adenosine residue of the tRNA.Link to AmiGO
0.0562GO:0006418The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.079300970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.042100640Propanoate metabolismLink to KEGG PATHWAY
0.036100860Porphyrin and chlorophyll metabolismLink 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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