Co-expression analysis

Gene ID At5g40340
Gene name PWWP domain-containing protein
Module size 30 genes
NF 0.42
%ile 58.2



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
0.5673.01.00At5g40340834032PWWP domain-containing proteinF:molecular_function unknown;P:unknown;C:nucleolus;MOFBPVAO.I.H.G.S.X.
0.6982.90.85At5g47690834820bindingF:binding;P:biological_process unknown;C:mitochondrion, nucleus, chloroplast;MOFPBVAO.I.H.G.S.X.
0.6176.70.85At3g54230824590nucleic acid binding / nucleotide binding / zinc ion bindingF:nucleotide binding, zinc ion binding, nucleic acid binding;P:unknown;C:intracellular;MOFPBAVO.I.H.G.S.X.
0.5974.70.83At5g44180834441homeobox transcription factor, putativeF:transcription factor activity;P:regulation of transcription, DNA-dependent, regulation of transcription;C:nucleus;MOBFPVAO.I.H.G.S.X.
0.5974.70.83At5g55660835660-F:unknown;P:unknown;C:mitochondrion;MOFBPVAO.I.H.G.S.X.
0.5673.00.82At5g04290830308KTF1 (KOW DOMAIN-CONTAINING TRANSCRIPTION FACTOR 1)F:nucleotide binding;P:biological_process unknown;C:cellular_component unknown;MOBPFVAO.I.H.G.S.X.
0.5570.60.85At1g31870840077unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus;MOFPBVAO.I.H.G.S.X.
0.5368.60.83At2g35530818118bZIP transcription factor family proteinF:transcription factor activity;P:regulation of transcription, DNA-dependent, transcription, DNA-dependent, regulation of transcription;C:nucleus, chloroplast;MOPFBVAO.I.H.G.S.X.
0.4963.50.82At2g06210815177ELF8 (EARLY FLOWERING 8)Encodes a yeast CTR9 homolog that is involved in the control of flowering time by elevating FLC expression to a level that creates the vernalization-responsive, winter-annual habit. Yeast CTR9 is a component of a five-member PAF1 complex that associates with RNA pol II and is thought to regulate gene expression by recruiting SET1 (a histone 3 Lys 4 [H3-K4] methyl transferase) to the initially transcribed [5'] regions of target chromatin. Mutants display reduced H3-K4 methylation in both FLC and FLM chromatin.O.I.H.G.S.X.
0.4862.50.82At1g18950838476aminoacyl-tRNA synthetase familyF:aminoacyl-tRNA ligase activity;P:biological_process unknown;C:unknown;MOFBPVAO.I.H.G.S.X.
0.4761.20.84At1g09770837506ATCDC5 (ARABIDOPSIS THALIANA CELL DIVISION CYCLE 5)Member of MYB3R- and R2R3- type MYB- encoding genes. Essential for plant innate immunity. Interacts with MOS4 and PRL1.O.I.H.G.S.X.
0.4761.20.84At1g80790844418XH/XS domain-containing protein / XS zinc finger domain-containing proteinF:unknown;P:unknown;C:cellular_component unknown;MOBFPAVO.I.H.G.S.X.
0.4761.20.82At5g58000835911-F:unknown;P:unknown;C:endoplasmic reticulum, chloroplast;MOPFVBO.I.H.G.S.X.
0.4558.30.82At3g50080824170VFB2 (VIER F-BOX PROTEINE 2)Encodes an F-box protein. Based on genetic analysis appears to be functionally redundant with VFB1,3, and 4. When expression of all 4 genes is reduced plants show defects in growth and reduced expression of auxin response genes.O.I.H.G.S.X.
0.4253.90.82At5g01270831743CPL2Encodes CPL2, a carboxyl-terminal domain (CTD) phosphatase that dephosphorylates CTD Ser5-PO4 of the RNA polymerase II complex. Regulates plant growth, stress and auxin responses.O.I.H.G.S.X.
0.4253.90.83At5g65720836701NFS1cysteine desulfurase whose activity is dependent on AtSufE activation.O.I.H.G.S.X.
0.4050.80.87At1g60830842376U2 snRNP auxiliary factor large subunit, putativeF:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MOFPO.I.H.G.S.X.
0.4050.80.83At2g27285817271unknown proteinF:unknown;P:unknown;C:unknown;MOBFPAVO.I.H.G.S.X.
0.4050.80.82At5g53800835461unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPVAO.I.H.G.S.X.
0.3846.70.84At5g41770834182crooked neck protein, putative / cell cycle protein, putativeF:binding;P:RNA processing;C:intracellular;MFPOBAO.I.H.G.S.X.
0.3745.00.84At1g28490839749SYP61 (SYNTAXIN OF PLANTS 61)Encodes one of 24 Arabidopsis syntaxins. Its mRNA has been shown to be expressed.O.I.H.G.S.X.
0.3541.60.83At5g18230831941transcription regulator NOT2/NOT3/NOT5 family proteinF:transcription regulator activity;P:negative regulation of transcription, regulation of transcription;C:nucleus;MOFBPVAO.I.H.G.S.X.
0.3133.80.86At3g19510821485HAT3.1Encodes a member of the PHD-finger homeodomain protein family. The HAT3.1 homeodomain is highly divergent in sequence even at positions that are almost invariable among homeodomains. HAT3.1 shows a preference for the sequence T(A/G)(A/C)ACCA, different from those bound by other homeodomains.O.I.H.G.S.X.
0.3133.80.84At4g08310826385unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVAO.I.H.G.S.X.
0.3133.80.83At2g25170817055PKL (PICKLE)Encodes a SWI/SWF nuclear-localized chromatin remodeling factor of the CHD3 group. Involved in post-germination repression of embryonic development. Acts with GA to establish repression of embryonic genes upon germination. Protein preferentially accumulates in differentiating tissues. Loss of function alleles are associated with expression of embryonic traits in adult plants and derepression of embryonic genes such as PHEROS1. Is an extragenic suppressor of slr2 (SSL2). Mutations in PKL (SSL2) restores lateral root formation in the slr2 mutant slr-1. It was proposed that PKL/SSL2-mediated chromatin remodeling negatively regulates auxin-mediated LR formation in Arabidopsis.O.I.H.G.S.X.
0.2726.20.86At5g64360836557DNAJ heat shock N-terminal domain-containing proteinF:heat shock protein binding;P:protein folding;C:cellular_component unknown;BMPOFAO.I.H.G.S.X.
0.2624.40.85At3g06400819814CHR11 (CHROMATIN-REMODELING PROTEIN 11)Encodes a SWI2/SNF2 chromatin remodeling protein belonging to the ISWI family. Involved in nuclear proliferation during megagametogenesis and cell expansion in the sporophyte. Constitutively expressed. RNAi induced loss of function in megagametogenesis results in female sterility.35S:RNAi plants have reduced stature.O.I.H.G.S.X.
0.2522.60.83At1g07980837313NF-YC10 (NUCLEAR FACTOR Y, SUBUNIT C10)F:transcription factor activity;P:regulation of transcription;C:intracellular, chloroplast;MFPOO.I.H.G.S.X.
0.2522.60.84At1g11520837695pliceosome associated protein-relatedF:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOO.I.H.G.S.X.
0.2420.70.85At3g62140825387unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBO.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
154.199.9GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
105.299.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
99.299.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
95.999.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
80.699.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
49.999.8GSM284388Arabidopsis GMPE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
47.299.8GSM284389Arabidopsis GMPE2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
43.399.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.899.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.499.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
41.199.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.299.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
38.199.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
37.799.7GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.099.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.299.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.099.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
35.099.7GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.799.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.299.7GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
31.999.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
31.799.7GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
29.299.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.299.7GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.699.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.599.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
26.199.7GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
22.899.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.299.4GSM131593ATGE_36_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
14.099.4GSM142736DH001_ATH1_A3-TCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
14.099.4GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
12.599.3GSM284387Arabidopsis GSUS4bGSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.399.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
12.299.3GSM131591ATGE_36_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
12.099.3GSM131592ATGE_36_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
11.899.3GSM284394Arabidopsis GCE3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
11.199.2GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
10.799.2GSM284386Arabidopsis GSUS3GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.699.2GSM284385Arabidopsis GEP6GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
10.599.2GSM284392Arabidopsis GCE1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
9.999.1GSM106913opr3_JA_8 hrs_Rep2GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO
9.999.1GSM142739DH001_ATH1_A6-TCP2GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.199.1GSM184509Pericycle root cells 2hr continuous KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
8.899.0GSM284396Arabidopsis GPSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
8.899.0GSM311281Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
8.699.0GSM106967opr3_OPDA_22 hrs_Rep1GSE4733Transcriptional regulators of stamen development in Arabidopsis identified by transcriptional profilingLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0632GO:0016481Any process that stops, prevents or reduces the frequency, rate or extent of transcription.Link to AmiGO
0.0592GO:0045941Any process that activates or increases the frequency, rate or extent of transcription.Link to AmiGO
0.0561GO:0006351The synthesis of RNA on a template of DNA.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.056100730Thiamine metabolismLink to KEGG PATHWAY
0.030103030DNA replicationLink to KEGG PATHWAY
0.029103410Base excision repairLink 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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