Co-expression analysis

Gene ID At5g27470
Gene name seryl-tRNA synthetase / serine--tRNA ligase
Module size 7 genes
NF 0.54
%ile 74.8



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
0.5368.61.00At5g27470832806seryl-tRNA synthetase / serine--tRNA ligaseF:serine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, seryl-tRNA aminoacylation;C:cytosol;OBMFAPO.I.H.G.S.X.
0.6781.60.95At1g64550842763ATGCN3member of GCN subfamilyO.I.H.G.S.X.
0.6075.70.95At4g26300828736emb1027 (embryo defective 1027)F:nucleotide binding, aminoacyl-tRNA ligase activity, arginine-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, arginyl-tRNA aminoacylation;C:mitochondrion, chloroplast;OBMAFPVO.I.H.G.S.X.
0.5974.70.95At1g16870838258mitochondrial 28S ribosomal protein S29-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPO.I.H.G.S.X.
0.5065.30.96At3g57290824896EIF3E (EUKARYOTIC TRANSLATION INITIATION FACTOR 3E)Encodes a protein that is found in not only the eif3 complex but also in association with subunits of the COP9 signalosome. eIF3e appears to be subjected to proteasome-dependent degradation that requires the PCI domain of eIF3e. The level of eIF3e present in cells appears to affect the rate of translation.O.I.H.G.S.X.
0.4761.20.96At3g62120825385tRNA synthetase class II (G, H, P and S) family proteinF:proline-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:prolyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:membrane;BOMAFPO.I.H.G.S.X.
0.4050.80.94At1g04510839503transducin family protein / WD-40 repeat family proteinF:ubiquitin-protein ligase activity, nucleotide binding;P:response to cadmium ion;C:nucleolus, CUL4 RING ubiquitin ligase complex;MFOBPAO.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
47.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.799.8GSM184910Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
44.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
41.399.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.699.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.499.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.399.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.299.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.499.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
34.299.7E-MEXP-807-raw-cel-1173273088
34.099.7E-MEXP-807-raw-cel-1173273196
33.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
30.399.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.699.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.699.7E-MEXP-807-raw-cel-1173273116
29.499.7GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.199.7GSM62698arf6/arf6 ARF8/arf8 flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
28.699.7GSM184911Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
28.199.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.799.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.499.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.899.7GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.599.6GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.599.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.099.6E-MEXP-807-raw-cel-1173273060
21.999.6GSM62694Columbia flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
19.899.6E-MEXP-807-raw-cel-1173273170
19.199.6E-MEXP-807-raw-cel-1173273223
18.499.5E-MEXP-849-raw-cel-1181980942
17.799.5GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
17.499.5GSM131580ATGE_32_B2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.399.5GSM131579ATGE_32_A2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
17.299.5GSM128732Hennig_1-4_flower-buds-CK_021114_1_B_Rep2_ATH1GSE5526Transcriptional Programs of Early Reproductive Stages in ArabidopsisLink to GEO
16.699.5E-MEXP-849-raw-cel-1181980966
16.499.5GSM131581ATGE_32_C2GSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
16.099.5E-MEXP-849-raw-cel-1181980894
15.099.4GSM47019Ler 9GSE2473Small RNA biogenesis mutantsLink to GEO
14.999.4E-MEXP-1592-raw-cel-1617526944
14.799.4GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
14.599.4E-MEXP-849-raw-cel-1181980950
13.999.4GSM131325AtGen_6-3521_Saltstress-Roots-12.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
13.899.4GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.799.4E-MEXP-849-raw-cel-1181980934
13.699.4GSM131639ATGE_92_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.499.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
13.399.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.399.4GSM131640ATGE_92_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
13.099.4E-MEXP-1592-raw-cel-1617526976
13.099.4GSM184920Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
13.099.4GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.999.3GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
12.499.3GSM133962Fukuda_1-7_6A_Rep1_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
12.299.3GSM131641ATGE_92_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.899.3GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
11.699.3E-MEXP-1592-raw-cel-1617526848
11.699.3GSM62702arf6 arf8 flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
10.999.2E-MEXP-849-raw-cel-1181980974
10.899.2GSM133963Fukuda_1-8_6B_Rep2_ATH1GSE5748In vitro tracheary element transdifferentiation of Col-0 suspension cells.Link to GEO
10.699.2E-MEXP-849-raw-cel-1181980902
10.399.2E-MEXP-849-raw-cel-1181980958
10.399.2GSM131621ATGE_55_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
10.199.2GSM131623ATGE_55_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.999.1GSM131622ATGE_55_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
9.899.1GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.899.1GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.799.1GSM284390Arabidopsis GPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.799.1E-MEXP-1592-raw-cel-1617526912
9.599.1GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
9.199.1GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
9.199.1GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
8.999.0GSM226552Slice10JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
8.899.0E-MEXP-849-raw-cel-1181980910
8.699.0GSM133752Turner_A-6-Turne-WT-Top2_SLDGSE5729Role of COV in vascular patterningLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2221GO:0006420The process of coupling arginine to arginyl-tRNA, catalyzed by arginyl-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
0.2221GO:0006433The process of coupling proline to prolyl-tRNA, catalyzed by prolyl-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
0.2221GO:0006434The process of coupling serine to seryl-tRNA, catalyzed by seryl-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

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.111300970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
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



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