Co-expression analysis

Gene ID At4g34310
Gene name unknown protein
Module size 27 genes
NF 0.23
%ile 23.9



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
1.00100.01.00At4g34310829581unknown proteinF:unknown;P:unknown;C:unknown;FMBOPO.I.H.G.S.X.
0.4457.20.90At1g31814840070FRL2 (FRIGIDA LIKE 2)family member of FRI-related genes that is required for the winter-annual habit. Genbank accession BK004885O.I.H.G.S.X.
0.3846.70.89At2g32760817836unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOBO.I.H.G.S.X.
0.3541.60.89At5g51710835245KEA5member of Putative potassium proton antiporter familyO.I.H.G.S.X.
0.3133.80.89At1g08060837322MOM (MORPHEUS MOLECULE)F:unknown;P:chromatin silencing;C:nucleus;MFOBPVAO.I.H.G.S.X.
0.3032.10.88At1g74860843825unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBVO.I.H.G.S.X.
0.2726.20.89At5g185252745988ATP binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinaseF:protein serine/threonine kinase activity, protein tyrosine kinase activity, protein kinase activity, ATP binding;P:protein amino acid phosphorylation;C:CUL4 RING ubiquitin ligase complex;BMFOPAO.I.H.G.S.X.
0.2726.20.90At5g64390836560HEN4 (HUA ENHANCER 4)encodes a K homology (KH) domain-containing, putative RNA binding protein that interacts with HUA1, a CCCH zinc finger RNA binding protein in the nucleus. HEN4 acts redundantly with HUA1 and HUA2 in the specification of floral organ identity in the third whorl.O.I.H.G.S.X.
0.2624.40.88At5g47490834799unknown proteinF:unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.2522.60.88At1g73730843708EIL3 (ETHYLENE-INSENSITIVE3-LIKE3)Encodes a putative transcription factor involved in ethylene signalling. Isolated DNA binding domain has been shown to bind DNA in vitro.O.I.H.G.S.X.
0.2522.60.88At4g14790827134ATSUV3encodes a nuclear-encoded DExH box RNA helicase, which is localized to mitochondria and whose in vitro ATPase activity is stimulated with mitochondrial RNA.O.I.H.G.S.X.
0.2522.60.88At3g18350821364unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2420.70.88At1g48040841222catalytic/ protein serine/threonine phosphataseF:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVAO.I.H.G.S.X.
0.2420.70.88At2g23140816846binding / ubiquitin-protein ligaseF:ubiquitin-protein ligase activity, binding;P:protein ubiquitination;C:ubiquitin ligase complex;OPMFBVAO.I.H.G.S.X.
0.2319.30.88At3g10360820198APUM4 (Arabidopsis Pumilio 4)F:RNA binding, binding;P:biological_process unknown;C:cellular_component unknown;FOMPBO.I.H.G.S.X.
0.2217.50.88At2g22690816800protein binding / zinc ion bindingF:protein binding, zinc ion binding;P:unknown;C:unknown;MFPOO.I.H.G.S.X.
0.2014.40.88At4g16320--O.I.H.G.S.X.
0.2014.40.89At2g44710819079RNA recognition motif (RRM)-containing proteinF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MOPBFVAO.I.H.G.S.X.
0.2014.40.89At4g32160829348phox (PX) domain-containing proteinF:phosphoinositide binding;P:signal transduction;C:unknown;MOBFPAVO.I.H.G.S.X.
0.1811.40.89At5g22030832263UBP8 (UBIQUITIN-SPECIFIC PROTEASE 8)F:ubiquitin-specific protease activity, ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;MOFPVBO.I.H.G.S.X.
0.1710.20.89At1g45160841084kinaseF:kinase activity;P:protein amino acid phosphorylation;C:cellular_component unknown;MOPFBVAO.I.H.G.S.X.
0.1710.20.89At5g20680832191unknown proteinF:unknown;P:biological_process unknown;C:unknown;POMFVBO.I.H.G.S.X.
0.157.80.88At3g03810821131EDA30 (embryo sac development arrest 30)F:molecular_function unknown;P:N-terminal protein myristoylation, polar nucleus fusion, pollen tube development;C:chloroplast;PO.I.H.G.S.X.
0.157.80.89At1g30970839984SUF4 (suppressor of FRIGIDA4)Encodes SUF4 (SUPPRESSOR of FRI 4), a putative zinc-finger-containing transcription factor that is required for delayed flowering in winter-annual Arabidopsis. suf4 mutations strongly suppress the late-flowering phenotype of FRI (FRIGIDA) mutants. suf4 mutants also show reduced H3K4 trimethylation at FLC (FLOWERING LOCUS C), a floral inhibitor. SUF4 may act to specifically recruit a putative histone H3 methyltransferase EFS (EARLY FLOWERING IN SHORT DAYS) and the PAF1-like complex to the FLC locus.O.I.H.G.S.X.
0.135.80.89At1g22020838807SHM6 (serine hydroxymethyltransferase 6)Encodes a putative serine hydroxymethyltransferase.O.I.H.G.S.X.
0.124.90.88At3g63070825482PWWP domain-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBO.I.H.G.S.X.
0.061.40.88At3g06340819808DNAJ heat shock N-terminal domain-containing proteinF:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMFPAVO.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
80.799.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
70.399.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
68.499.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
55.199.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.299.8GSM184905Arabidopsis, root cells, protophloem, standard conditions, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
54.099.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.399.8GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
52.599.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
51.199.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.199.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.899.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.699.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.699.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
50.699.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
49.699.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.399.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
48.199.8E-ATMX-1-raw-cel-1112746154
48.199.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.799.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
44.199.8GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
42.399.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.499.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
39.799.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
39.299.8E-ATMX-1-raw-cel-1112746209
37.599.7GSM184906Arabidopsis, root cells, protophloem, standard conditions, replicate 3GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
36.499.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
35.699.7E-ATMX-1-raw-cel-1112746267
33.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
32.999.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.499.7GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
23.399.6GSM184904Arabidopsis, root cells, protophloem, standard conditions, replicate 1GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
19.899.6E-MEXP-1725-raw-cel-1669614623
16.599.5E-MEXP-1725-raw-cel-1669614634
15.499.5GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
13.599.4GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
13.199.4GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.799.3GSM131303AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1GSE5622AtGenExpress: Stress Treatments (Osmotic stress)Link to GEO
11.599.3E-MEXP-1725-raw-cel-1669614562
11.499.3E-MEXP-1725-raw-cel-1669614582
10.299.2GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
9.999.1GSM134301Penfield_1-3_endosperm-control_Rep3_ATH1GSE5751The early post-germinative embryo and endosperm transcriptomes in ArabidopsisLink to GEO
9.699.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.699.0GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0591GO:0006563The chemical reactions and pathways involving L-serine, the L-enantiomer of serine, i.e. (2S)-2-amino-3-hydroxypropanoic acid.Link to AmiGO
0.0571GO:0006342Repression of transcription by altering the structure of chromatin, e.g. by conversion of large regions of DNA into an inaccessible state often called heterochromatin.Link to AmiGO
0.0571GO:0006544The chemical reactions and pathways involving glycine, aminoethanoic acid.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.045100670One carbon pool by folateLink to KEGG PATHWAY
0.040100460Cyanoamino acid metabolismLink to KEGG PATHWAY
0.028100260Glycine, serine and threonine 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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