Co-expression analysis

Gene ID At3g08860
Gene name alanine--glyoxylate aminotransferase, putative / beta-alanine-pyruvate aminotransferase, putative / AGT, putative
Module size 14 genes
NF 0.46
%ile 64.5



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
0.4457.21.00At3g08860820034alanine--glyoxylate aminotransferase, putative / beta-alanine-pyruvate aminotransferase, putative / AGT, putativeF:pyridoxal phosphate binding, transaminase activity, catalytic activity, alanine-glyoxylate transaminase activity;P:unknown;C:mitochondrion;BOMFAPVO.I.H.G.S.X.
0.7788.00.55At1g66390842957MYB90 (MYB DOMAIN PROTEIN 90)production of anthocyanin pigment 2 protein (PAP2)O.I.H.G.S.X.
0.6982.90.54At1g56600842114AtGolS2 (Arabidopsis thaliana galactinol synthase 2)F:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:carbohydrate biosynthetic process;C:cellular_component unknown;PMFVBOO.I.H.G.S.X.
0.5368.60.48At1g57590842135carboxylesteraseF:carboxylesterase activity;P:biological_process unknown;C:unknown;PMOBO.I.H.G.S.X.
0.5368.60.49At5g15190831371unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.5267.40.55At5g19460832066atnudt20 (Arabidopsis thaliana Nudix hydrolase homolog 20)F:hydrolase activity;P:biological_process unknown;C:chloroplast;BFOMPO.I.H.G.S.X.
0.5065.30.53At1g07430837255protein phosphatase 2C, putative / PP2C, putativeF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVO.I.H.G.S.X.
0.5065.30.50At2g41190818718amino acid transporter family proteinF:amino acid transmembrane transporter activity;P:amino acid transport;C:plasma membrane, membrane;MPOFBAVO.I.H.G.S.X.
0.4963.50.51At5g54060835489UF3GT (udp-glucose:flavonoid 3-O-glucosyltransferase)F:transferase activity, transferring glycosyl groups;P:N-terminal protein myristoylation, response to sucrose stimulus;C:cellular_component unknown;PMBVFOO.I.H.G.S.X.
0.4761.20.57At3g13672820573seven in absentia (SINA) family proteinF:molecular_function unknown;P:multicellular organismal development, ubiquitin-dependent protein catabolic process;C:nucleus;MPOO.I.H.G.S.X.
0.4355.30.49At4g22870828386leucoanthocyanidin dioxygenase, putative / anthocyanidin synthase, putativeF:oxidoreductase activity;P:unknown;C:cellular_component unknown;POBFMO.I.H.G.S.X.
0.3032.10.58At2g25625817103unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO.I.H.G.S.X.
0.2930.30.50At5g52300835306LTI65 (LOW-TEMPERATURE-INDUCED 65)encodes a protein that is induced in expression in response to water deprivation such as cold, high-salt, and dessication. The response appears to be via abscisic acid. The promoter region contains two ABA-responsive elements (ABREs) that are required for the dehydration-responsive expression of rd29B as cis-acting elements. Protein is a member of a gene family with other members found plants, animals and fungi.O.I.H.G.S.X.
0.2420.70.57At5g13170831156SAG29 (SENESCENCE-ASSOCIATED PROTEIN 29)F:unknown;P:unknown;C:endomembrane system, integral to membrane, membrane;PMOBO.I.H.G.S.X.

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Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
150.599.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
115.099.9GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
89.799.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
84.599.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
74.399.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
70.499.9GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
69.799.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
68.099.9GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
66.299.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
65.099.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
64.899.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
64.599.8GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
64.199.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
63.599.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
62.799.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
62.699.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
62.499.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
62.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
61.799.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.299.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
60.199.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
58.699.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.199.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.999.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM311295Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
42.199.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.199.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
37.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.699.6GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
22.399.6GSM131689ATGE_77_EGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
21.899.6GSM131690ATGE_77_FGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.299.6GSM131688ATGE_77_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
19.299.6GSM131693ATGE_78_FGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
17.799.5GSM10479lec1-1 Cotyledon Stage Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
17.599.5GSM131692ATGE_78_EGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
16.599.5GSM131691ATGE_78_DGSE5634AtGenExpress: Developmental series (siliques and seeds)Link to GEO
15.899.5GSM10480lec1-1 Cotyledon Stage Seed 2GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO
15.799.5GSM10448WT Cotyledon Stage Seed 1GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
15.499.5GSM133816Yang_1-1_young-pod_Rep1_ATH1GSE5736To identify changes in gene expression during silique senescence in Arabidopsis thalianaLink to GEO
15.199.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
12.499.3E-MEXP-1451-raw-cel-1585200298
12.299.3GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
12.299.3GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.399.3E-MEXP-1451-raw-cel-1585200330
10.999.2GSM10449WT Cotyledon Stage Seed 2GSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0341GO:0009738A series of molecular signals mediated by the detection of abscisic acid.Link to AmiGO
0.0321GO:0016051The chemical reactions and pathways resulting in the formation of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.Link to AmiGO
0.0291GO:0006865The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of, within or between cells.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.067100941Flavonoid biosynthesisLink to KEGG PATHWAY
0.008101061Biosynthesis of phenylpropanoidsLink 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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