Co-expression analysis

Gene ID At4g23750
Gene name CRF2 (CYTOKININ RESPONSE FACTOR 2)
Module size 16 genes
NF 0.34
%ile 44.2



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
1.00100.01.00At4g23750828475CRF2 (CYTOKININ RESPONSE FACTOR 2)encodes a member of the ERF (ethylene response factor) subfamily B-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily.O.I.H.G.S.X.
0.5267.40.78At3g12860820468nucleolar protein Nop56, putativeF:unknown;P:biological_process unknown;C:unknown;MOFPBAVO.I.H.G.S.X.
0.4457.20.78At5g48240834877unknown proteinF:molecular_function unknown;P:biological_process unknown;C:nucleolus;MOFPBO.I.H.G.S.X.
0.4253.90.81At3g12270820407PRMT3 (PROTEIN ARGININE METHYLTRANSFERASE 3)F:methyltransferase activity, zinc ion binding;P:metabolic process;C:intracellular;MBOFPAO.I.H.G.S.X.
0.3846.70.77At1g04870839393PRMT10Encodes a type I protein arginine methyltransferase based on the At1g04870.2 gene model. PRMT10 can catalyze the asymmetric dimethylation of arginine 3 on histone 4 and can also methylate myelin basic protein in vitro. Mutants lacking PRMT10 flower late due to defects in the autonomous pathway and they have elevated levels of FLC transcripts.O.I.H.G.S.X.
0.3846.70.79At3g05060819668SAR DNA-binding protein, putativeSAR DNA-binding protein, putative, strong similarity to SAR DNA-binding protein-1 (Pisum sativum) GI:3132696; contains Pfam profile PF01798: Putative snoRNA binding domain; encodes NOP58-like proteinO.I.H.G.S.X.
0.3745.00.79At1g56110842063NOP56 (Arabidopsis homolog of nucleolar protein Nop56)NOP56-like proteinO.I.H.G.S.X.
0.3235.70.81At5g14050831254transducin family protein / WD-40 repeat family proteinF:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;BMOFPAVO.I.H.G.S.X.
0.3133.80.78At1g13160837874SDA1 family proteinF:binding;P:biological_process unknown;C:cellular_component unknown;BMOFPVAO.I.H.G.S.X.
0.3133.80.77At4g31120829240SKB1 (SHK1 BINDING PROTEIN 1)Involved in vernalization. Required for epigenetic silencing of FLC, and for vernalization-mediated histone modification.O.I.H.G.S.X.
0.2930.30.77At1g03360839521ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4)F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFPO.I.H.G.S.X.
0.2624.40.78At2g40430818636-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBO.I.H.G.S.X.
0.2522.60.78At3g18600821391DEAD/DEAH box helicase, putativeF:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:nucleolus;BOMFPAVO.I.H.G.S.X.
0.168.80.77At5g14520831303pescadillo-relatedF:transcription coactivator activity;P:cell proliferation;C:nucleolus, intracellular;MFOPO.I.H.G.S.X.
0.157.80.78At3g51800824343ATG2putative nuclear DNA-binding protein G2p (AtG2) mRNA,O.I.H.G.S.X.
0.082.30.78At1g24510839066T-complex protein 1 epsilon subunit, putative / TCP-1-epsilon, putative / chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:plasma membrane;BOMFPAO.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
87.599.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.399.8GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
56.099.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
53.499.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
47.099.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
45.199.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.799.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
42.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
40.699.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.299.8GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
39.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.599.8GSM133758Lindsey_1-11_heart-stage-root_Rep2_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
38.199.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
36.799.7GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
32.899.7GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
31.999.7GSM173444wild-type Arabidopsis, biological rep3GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
31.699.7GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
29.599.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
28.299.7GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
27.999.7GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
25.999.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.699.6GSM133759Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
24.599.6GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
23.099.6GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
22.899.6GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.199.6GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.799.5GSM142647MC002_ATH1_A9.1-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
17.299.5GSM173442wild-type Arabidopsis, biological rep1GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
17.299.5GSM142649MC002_ATH1_A9.3-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
16.699.5GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
15.799.5GSM142648MC002_ATH1_A9.2-dubos-aahGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
14.499.4GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.899.4GSM184516Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.399.4GSM173443wild-type Arabidopsis, biological rep2GSE7211A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thalianaLink to GEO
13.399.4GSM133776Lindsey_1-1_globular-apical_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.999.3GSM244442Arabidopsis wild-type_T0 (not inoculated)_biological rep1_exp1GSE9674Expression data from Arabidopsis plants misexpressing AtMYB30 after Xanthomonas inoculation at early timepointsLink to GEO
12.899.3GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
12.399.3GSM184519Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.899.3GSM184517Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.699.3GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
11.599.3GSM142655MC002_ATH1_A11.3-dubos-mxhGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
10.499.2GSM184520Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
9.799.1E-ATMX-1-raw-cel-1112746095
9.699.1E-TABM-18-raw-cel-489543494
9.699.1GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.399.1GSM142635MC002_ATH1_A5.1-dubos-5kxGSE6151The mechanisms involved in the interplay between dormancy and secondary growth in ArabidopsisLink to GEO
9.199.1GSM176879AWP_Control_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.699.0E-MEXP-509-raw-cel-829148420

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1111GO:0010220Any process that activates or induces the rate of the vernalization response, by which induction of flowering is normally caused by extended exposure to cold temperatures.Link to AmiGO
0.1051GO:0019919The process of methylation of peptidyl-arginine to form peptidyl-N(omega),N(omega)-dimethyl-L-arginine.Link to AmiGO
0.0951GO:0009987Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.031103018RNA degradationLink 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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