Co-expression analysis

Gene ID At3g48770
Gene name ATP binding / DNA binding
Module size 56 genes
NF 0.27
%ile 30.1



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
1.00100.01.00At3g48770824038ATP binding / DNA bindingF:DNA binding, ATP binding;P:biological_process unknown;C:chloroplast;PMBOFAO.I.H.G.S.X.
0.4862.50.73At1g65810842892tRNA-splicing endonuclease positive effector-relatedF:unknown;P:biological_process unknown;C:cellular_component unknown;MBOFPAVO.I.H.G.S.X.
0.4862.50.69At1g09220837442pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cytosolic ribosome;POMFO.I.H.G.S.X.
0.4659.80.66At4g08750826444transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.4558.30.70At3g15130820744pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POFMO.I.H.G.S.X.
0.4355.30.69At5g47160834762YDG/SRA domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PMOBFO.I.H.G.S.X.
0.4152.40.68At2g07681815356cytochrome c biogenesis protein, putativeF:heme transporter activity;P:cytochrome complex assembly, respiratory chain complex IV assembly, heme transport, protein complex assembly;C:membrane;OBPAMO.I.H.G.S.X.
0.3948.40.67At1g71760843506unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOO.I.H.G.S.X.
0.3948.40.66At5g13230831163pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBO.I.H.G.S.X.
0.3948.40.65At3g42330823226transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3745.00.72At1g52640841696pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBAO.I.H.G.S.X.
0.3643.60.67At4g088903769919transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3643.60.68At1g33860840283unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknownO.I.H.G.S.X.
0.3541.60.65At5g27340832792unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknownO.I.H.G.S.X.
0.3439.80.66At1g02420837779pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POMFBAO.I.H.G.S.X.
0.3439.80.66At4g20090827754EMB1025 (embryo defective 1025)F:unknown;P:embryonic development ending in seed dormancy;C:unknown;POMFBAO.I.H.G.S.X.
0.3338.10.65At2g144103768296-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3338.10.66At5g35010833446transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3338.10.66At3g56550824822pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;POMFO.I.H.G.S.X.
0.3235.70.67At1g41770840783transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3133.80.69At5g16640831526pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBAO.I.H.G.S.X.
0.3032.10.67At3g319703769217transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3032.10.68At1g34400840342unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.3032.10.67At5g34970833442transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.3032.10.67At3g42730823306transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2930.30.66At1g20400838629myosin heavy chain-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBVAO.I.H.G.S.X.
0.2930.30.65At4g08210826371pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBO.I.H.G.S.X.
0.2830.30.67At2g077683767772heme transporterF:heme transporter activity;P:cytochrome complex assembly, heme transport;C:mitochondrion, membraneO.I.H.G.S.X.
0.2830.30.67At2g28050817349pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:cellular_component unknown;POMFBAO.I.H.G.S.X.
0.2726.20.66At1g36756840586unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2726.20.65At3g55650824731pyruvate kinase, putativeF:pyruvate kinase activity, potassium ion binding, magnesium ion binding, catalytic activity;P:glycolysis;C:mitochondrion;BOMPFAO.I.H.G.S.X.
0.2726.20.66At1g13040837861pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:plasma membrane;POMFBAO.I.H.G.S.X.
0.2624.40.67At1g356003766951transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2624.40.70At2g076773768455-F:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2522.60.67At1g03540839466pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POFMBO.I.H.G.S.X.
0.2522.60.69At1g10520837592DNA polymerase lambda (POLL)F:DNA binding, DNA-directed DNA polymerase activity, catalytic activity, nucleotidyltransferase activity;P:DNA repair, DNA replication;C:intracellular;MOBFAPVO.I.H.G.S.X.
0.2522.60.66At5g01110831824pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:unknown;C:chloroplast;POMFBAO.I.H.G.S.X.
0.2420.70.65At2g108803768614transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2217.50.70At2g25370817076zinc finger protein-relatedF:zinc ion binding;P:unknown;C:unknown;MPOFBO.I.H.G.S.X.
0.2217.50.66At4g22760828375pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:chloroplast;POMFBO.I.H.G.S.X.
0.2115.80.67At4g040503770301transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.2115.80.66At2g27630817309ubiquitin carboxyl-terminal hydrolase-relatedF:ubiquitin thiolesterase activity, zinc ion binding;P:ubiquitin-dependent protein catabolic process;C:intracellular;POBMFO.I.H.G.S.X.
0.2115.80.66At5g38040833784UDP-glucoronosyl/UDP-glucosyl transferase family proteinF:transferase activity, transferring hexosyl groups, UDP-glycosyltransferase activity;P:metabolic process;C:cellular_component unknown;PMBVOFO.I.H.G.S.X.
0.2014.40.65At5g27230832781-F:unknown;P:biological_process unknown;C:unknown;MOPBFAVO.I.H.G.S.X.
0.2014.40.65At1g371603767064transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.1912.70.65At2g07701815376unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.1811.40.66At5g351403771250transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.168.80.66At1g423603767241transposable element geneF:unknown;P:unknown;C:unknownO.I.H.G.S.X.
0.146.80.66At2g26790817220pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:mitochondrion;POMFBAVO.I.H.G.S.X.
0.135.80.66At2g07678815354unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.135.80.66At3g13020820488hAT dimerisation domain-containing proteinF:protein dimerization activity;P:biological_process unknown;C:cellular_component unknown;PBFMOO.I.H.G.S.X.
0.124.90.66At5g42120834217lectin protein kinase family proteinF:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVAO.I.H.G.S.X.
0.114.10.65At1g70650843402zinc finger (Ran-binding) family proteinF:binding, zinc ion binding;P:biological_process unknown;C:mitochondrion, intracellular;MPOFO.I.H.G.S.X.
0.114.10.66At2g39230818508pentatricopeptide (PPR) repeat-containing proteinF:unknown;P:biological_process unknown;C:unknown;POMFBAO.I.H.G.S.X.
0.114.10.70At2g46980819312unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVO.I.H.G.S.X.
0.103.40.68At2g076823768187transposable element geneF:unknown;P:unknown;C:unknownO.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
38.799.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
34.799.7GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
33.499.7GSM189112HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1GSE7796Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 LevelsLink to GEO
33.199.7GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.699.7GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.799.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
30.199.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
29.699.7GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.099.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.799.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.399.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.499.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.399.7GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
26.099.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.999.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
25.899.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.199.6GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.299.6GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
24.199.6GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link 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
23.399.6GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
21.199.6E-MEXP-807-raw-cel-1173273252
21.099.6E-ATMX-35-raw-cel-1574334816
20.999.6GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.699.6GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.999.6GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
19.799.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
19.399.6GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
19.299.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.299.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
18.299.5E-ATMX-35-raw-cel-1574334800
17.999.5GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.899.5E-MEXP-807-raw-cel-1173273170
17.699.5E-MEXP-807-raw-cel-1173273144
17.599.5GSM311291Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
16.699.5GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.099.5GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
15.299.4E-ATMX-35-raw-cel-1574334832
13.799.4GSM284393Arabidopsis GCE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.699.3E-MEXP-807-raw-cel-1173273116
12.499.3GSM311292Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
12.299.3E-MEXP-807-raw-cel-1173273223
10.899.2GSM133765Lindsey_1-17_torpedo-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.899.1E-MEXP-807-raw-cel-1173273060
9.799.1GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.199.1GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0632GO:0015886The directed movement of heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring, into, out of, within or between cells.Link to AmiGO
0.0582GO:0017004The aggregation, arrangement and bonding together of a cytochrome complex. A cytochrome complex is a protein complex in which at least one of the proteins is a cytochrome, i.e. a heme-containing protein involved in catalysis of redox reactions.Link to AmiGO
0.0311GO:0008535The aggregation, arrangement and bonding together of a set of components to form respiratory chain complex IV (also known as cytochrome c oxidase), the terminal member of the respiratory chain of the mitochondrion and some aerobic bacteria. Cytochrome c oxidases are multi-subunit enzymes containing from 13 subunits in the mammalian mitochondrial form to 3-4 subunits in the bacterial forms.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.031103450Non-homologous end-joiningLink to KEGG PATHWAY
0.021103410Base excision repairLink to KEGG PATHWAY
0.017100620Pyruvate 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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