Co-expression analysis

Gene ID At2g03270
Gene name DNA-binding protein, putative
Module size 33 genes
NF 0.54
%ile 75.2



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
0.5673.01.00At2g03270814856DNA-binding protein, putativeF:nucleoside-triphosphatase activity, DNA binding, nucleotide binding, ATP binding;P:unknown;C:cellular_component unknown;BMOFPAVO.I.H.G.S.X.
0.7385.50.87At1g05120839319SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing proteinF:in 6 functions;P:unknown;C:unknown;MFBOPVAO.I.H.G.S.X.
0.7184.20.86At5g65000836624nucleotide-sugar transporter family proteinF:nucleotide-sugar transmembrane transporter activity, sugar:hydrogen symporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:integral to membrane, Golgi membrane;MPOFABO.I.H.G.S.X.
0.6882.20.85At5g49220834982unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.6882.20.85At1g0721083723230S ribosomal protein S18 familyF:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOPMFO.I.H.G.S.X.
0.6781.60.87At3g01320821265SNL1 (SIN3-LIKE 1)Encodes SIN3-like 1, a homolog of the transcriptional repressor SIN3 (AT1G24190).O.I.H.G.S.X.
0.6579.60.84At5g58510835964unknown proteinF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOBO.I.H.G.S.X.
0.6277.30.87At1g71350843476eukaryotic translation initiation factor SUI1 family proteinF:RNA binding, translation initiation factor activity;P:translational initiation;C:unknown;MFOPAO.I.H.G.S.X.
0.6277.30.88At5g55300835623TOP1ALPHA (DNA TOPOISOMERASE I ALPHA)Encodes a type-I DNA topoisomerase I. Disruptions in this gene affect phyllotaxis and plant architecture suggesting that the gene plays a critical role in the maintenance of a regular pattern of organ initiation. Isolated as a protein oxidized during seed germination; proteomics approach revealed differences in de novo synthesis levels of this protein in condition with vs. without salicylic acid in the period from 0 to 40 hrs. following seed imbibition.O.I.H.G.S.X.
0.6176.70.83At2g30320817582tRNA pseudouridine synthase family proteinF:pseudouridine synthase activity;P:tRNA processing, pseudouridine synthesis;C:unknown;OBMFPAO.I.H.G.S.X.
0.6075.70.87At1g47570841166zinc finger (C3HC4-type RING finger) family proteinF:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPVO.I.H.G.S.X.
0.6075.70.86At3g03110821074XPO1BEncodes a member of the exportin family (XPO1B)which function as receptors for nuclear transport.Along with XPO1A involved in the development of male and female gametophytes.O.I.H.G.S.X.
0.5873.80.89At2g39760818561BPM3F:protein binding;P:biological_process unknown;C:unknown;MPOFVO.I.H.G.S.X.
0.5773.80.86At2g28320817379pleckstrin homology (PH) domain-containing protein / lipid-binding START domain-containing proteinF:phosphoinositide binding;P:signal transduction;C:plasma membrane;PMOO.I.H.G.S.X.
0.5673.00.86At3g17770821045dihydroxyacetone kinase family proteinF:glycerone kinase activity, ATP binding;P:glycerol metabolic process;C:cellular_component unknown;BOFMPAO.I.H.G.S.X.
0.5570.60.83At1g47490841157ATRBP47C (ARABIDOPSIS THALIANA RNA-BINDING PROTEIN 47C)F:RNA binding;P:unknown;C:unknown;MPFOBVAO.I.H.G.S.X.
0.5368.60.84At3g20770821625EIN3 (ETHYLENE-INSENSITIVE3)ethylene-insensitive3O.I.H.G.S.X.
0.5267.40.83At2g44660819074transferase, transferring glycosyl groups / transferase, transferring hexosyl groupsF:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:biological_process unknown;C:endomembrane system, endoplasmic reticulum membrane;MFOPBO.I.H.G.S.X.
0.5267.40.85At3g12530820432PSF2F:molecular_function unknown;P:DNA replication;C:nucleus;MFOPO.I.H.G.S.X.
0.5267.40.83At5g02910831746F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOO.I.H.G.S.X.
0.5267.40.86At1g05380837039DNA bindingF:DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPOFABO.I.H.G.S.X.
0.5267.40.84At3g03970819552bindingF:binding;P:spliceosome assembly, nuclear mRNA splicing, via spliceosome;C:cellular_component unknown;PO.I.H.G.S.X.
0.5267.40.84At5g01450831860protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPVFO.I.H.G.S.X.
0.5065.30.85At3g24740822072-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5065.30.84At5g49610835023F-box family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.4761.20.84At5g41880834193POLA3F:DNA primase activity;P:DNA replication, synthesis of RNA primer, DNA replication;C:unknown;MFOAPO.I.H.G.S.X.
0.4761.20.86At1g04230839575unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBVO.I.H.G.S.X.
0.4659.80.84At5g16800831543GCN5-related N-acetyltransferase (GNAT) family proteinF:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;MOBPAFVO.I.H.G.S.X.
0.4355.30.87At3g24200822006FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygenF:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPAO.I.H.G.S.X.
0.4355.30.86At5g66010836731RNA binding / nucleic acid binding / nucleotide bindingF:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPFO.I.H.G.S.X.
0.4050.80.86At1g71800843510cleavage stimulation factor, putativeF:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBAO.I.H.G.S.X.
0.3948.40.83At5g53150835396heat shock protein binding / unfolded protein bindingF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFAVO.I.H.G.S.X.
0.3846.70.84At2g34690818034ACD11 (ACCELERATED CELL DEATH 11)Gene product transports the glycolipid precursor sphingosine between membranes in vitro. Mutant constitutively expresses defense-related genes that accompany the hypersensitive response normally triggered by avirulent pathogens.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
73.399.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
50.499.8GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
47.699.8GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
45.199.8GSM184477Lateral Root Cap root cells 2hr KCl control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
35.199.7GSM184480Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
25.399.6GSM184483Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
23.099.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
22.999.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.099.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.299.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.899.6GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
20.599.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.299.6GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
20.199.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.999.6GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.999.6GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.899.6E-ATMX-35-raw-cel-1574334800
19.499.6GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.199.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.199.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.999.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.999.5GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.899.5E-ATMX-35-raw-cel-1574334816
18.599.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.499.5GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.299.5GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.299.5GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.699.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.299.4GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.099.4E-ATMX-35-raw-cel-1574334832
11.299.2GSM184893Arabidopsis, root cells, columella root cap, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.899.2GSM184481Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep3GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.699.2GSM184894Arabidopsis, root cells, columella root cap, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.599.2GSM266668Arabidopsis, root cells, columella root cap, -Fe, replicate 3GSE10501Expression analysis of root cell-types after iron deficiency (-Fe) treatmentLink to GEO
9.199.1GSM311289Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
8.999.0GSM10483lec1-1 Post-Mature Green Seed 1GSE1051Seed development in LEAFY COTYLEDON1 mutantsLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0571GO:0006269The synthesis of a short RNA polymer, usually 4-15 nucleotides long, using one strand of unwound DNA as a template; the RNA then serves as a primer from which DNA polymerases extend synthesis.Link to AmiGO
0.0561GO:0048439The process by which the anatomical structures of the flower are generated and organized. Morphogenesis pertains to the creation of form.Link to AmiGO
0.0541GO:0048645The process pertaining to the initial formation of an organ from unspecified parts. The process begins with the specific processes that contribute to the appearance of the discrete structure, such as inductive events, and ends when the structural rudiment of the organ is recognizable, such as a condensation of mesenchymal cells into the organ rudiment. Organs are a natural part or structure in an animal or a plant, capable of performing some special action (termed its function), which is essential to the life or well-being of the whole. The heart and lungs are organs of animals, and the petal and leaf are organs of plants. In animals the organs are generally made up of several tissues, one of which usually predominates, and determines the principal function of the organ.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.034100130Ubiquinone and other terpenoid-quinone biosynthesisLink to KEGG PATHWAY
0.032100510N-Glycan biosynthesisLink to KEGG PATHWAY
0.029103030DNA replicationLink 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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