Co-expression analysis

Gene ID At3g49670
Gene name BAM2 (BARELY ANY MERISTEM 2)
Module size 6 genes
NF 0.64
%ile 84.4



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
0.3338.11.00At3g49670824129BAM2 (BARELY ANY MERISTEM 2)Encodes a CLAVATA1-related receptor kinase-like protein required for both shoot and flower meristem function. Very similar to BAM1,with more than 85% a.a. identity. It has a broad expression pattern and is involved in vascular strand development in the leaf, control of leaf shape, size and symmetry, male gametophyte development and ovule specification and function. Anthers of double mutants (bam1bam2) appeared abnormal at a very early stage and lack the endothecium, middle, and tapetum layers. Further analyses revealed that cells interior to the epidermis (in anther tissue) acquire some characteristics of pollen mother cells (PMCs), suggesting defects in cell fate specification. The pollen mother-like cells degenerate before the completion of meiosis, suggesting that these cells are defective. In addition, the BAM2 expression pattern supports both an early role in promoting somatic cell fates and a subsequent function in the PMCs.O.I.H.G.S.X.
0.8089.80.80At3g26920822308-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMFO.I.H.G.S.X.
0.7788.00.86At5g45590834597unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPOO.I.H.G.S.X.
0.7586.90.83At1g24340839050emb2421 (embryo defective 2421)F:oxidoreductase activity, monooxygenase activity;P:embryonic development ending in seed dormancy;C:unknown;BOFPMO.I.H.G.S.X.
0.7385.50.77At1g50510841473indigoidine synthase A family proteinF:unknown;P:biological_process unknown;C:plasma membrane;OBFMPO.I.H.G.S.X.
0.4457.20.86At2g32910817853-F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOBFO.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
112.699.9GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
108.099.9GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
100.299.9GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
96.899.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
92.999.9GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
91.199.9GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
89.199.9GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
86.999.9GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
82.699.9GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
73.699.9GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
71.899.9GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
69.699.9GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
66.799.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.999.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
65.999.8GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
62.999.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
61.099.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
56.999.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
54.199.8GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
36.599.7GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
35.199.7GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
32.899.7GSM47019Ler 9GSE2473Small RNA biogenesis mutantsLink to GEO
29.699.7E-MEXP-1592-raw-cel-1617526848
28.599.7E-MEXP-1592-raw-cel-1617526944
26.499.7GSM128732Hennig_1-4_flower-buds-CK_021114_1_B_Rep2_ATH1GSE5526Transcriptional Programs of Early Reproductive Stages in ArabidopsisLink to GEO
26.399.7E-MEXP-849-raw-cel-1181980942
25.099.6GSM128661Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
23.199.6GSM131322AtGen_6-3422_Saltstress-Roots-6.0h_Rep2GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
21.799.6GSM47016Ler 6GSE2473Small RNA biogenesis mutantsLink to GEO
21.799.6E-MEXP-849-raw-cel-1181980894
21.699.6E-MEXP-1592-raw-cel-1617526880
21.499.6GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
20.999.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
20.499.6E-MEXP-849-raw-cel-1181980950
19.699.6E-MEXP-849-raw-cel-1181980966
19.599.6GSM204069protoplast_hypoxia_rep1GSE8248Identification of hypoxia-inducible genes in Arabidopsis mesophyll cellsLink to GEO
18.999.5E-MEXP-1592-raw-cel-1617526976
18.099.5GSM47015Ler 5GSE2473Small RNA biogenesis mutantsLink to GEO
17.799.5E-MEXP-849-raw-cel-1181980958
17.399.5GSM205159protoplast_KIN10_rep1GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
16.699.5GSM133751Turner_A-5-Turne-WT-Top1_SLDGSE5729Role of COV in vascular patterningLink to GEO
16.499.5GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.199.5GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
15.999.5GSM13779Dexamethasone plus cycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
15.899.5E-MEXP-849-raw-cel-1181980902
15.699.5E-MEXP-849-raw-cel-1181980934
15.599.5GSM13780CycloheximideGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
15.099.4GSM131321AtGen_6-3421_Saltstress-Roots-6.0h_Rep1GSE5623AtGenExpress: Stress Treatments (Salt stress)Link to GEO
15.099.4E-MEXP-849-raw-cel-1181980910
14.999.4GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
14.399.4E-MEXP-1592-raw-cel-1617526912
13.999.4GSM133752Turner_A-6-Turne-WT-Top2_SLDGSE5729Role of COV in vascular patterningLink to GEO
13.699.4GSM27363lec1-1 Floral BudGSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
13.699.4GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
13.299.4GSM62698arf6/arf6 ARF8/arf8 flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
13.299.4E-MEXP-849-raw-cel-1181980918
12.299.3GSM13783Dexamethasone plus cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
12.299.3GSM47018Ler 8GSE2473Small RNA biogenesis mutantsLink to GEO
12.299.3GSM152145siz1-3 drought 3GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
11.899.3GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.899.3GSM62694Columbia flowers_stage 1-10GSE2848Auxin Response Factor mediated flower gene expressionLink to GEO
11.599.3GSM13784Cycloheximide - replicateGSE911Identification of LEAFY targets during reproductive transitionLink to GEO
11.399.3GSM152143siz1-3 drought 2GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
11.099.2GSM133748Turner_A-2-Turne-Mut-Top2_SLDGSE5729Role of COV in vascular patterningLink to GEO
11.099.2GSM253201Nontransgenic(ga1-3rgargl2)-DEX-REP3GSE10019Identification of RGA downstream genes by using steroid-inducible systemLink to GEO
10.999.2E-MEXP-1592-raw-cel-1617526824
10.799.2GSM205185protoplast_KIN10_rep2GSE8257Identification of KIN10-target genes in Arabidopsis mesophyll cellsLink to GEO
10.599.2GSM184914Arabidopsis, root cells, cortex, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.599.2GSM232889Wt.3-1.0GSE9201Identification of genes responding to the activity of the Arabidopsis cytochrome P450 KLUH/CYP78A5Link to GEO
10.299.2GSM253199Nontransgenic(ga1-3rgargl2)-DEX-REP1GSE10019Identification of RGA downstream genes by using steroid-inducible systemLink to GEO
9.899.1GSM128676Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO
9.699.1GSM27359WT Floral BudGSE680Transcript Profiling of Arabidopsis Plant Life CycleLink to GEO
9.399.1E-MEXP-849-raw-cel-1181980974
8.699.0GSM152141siz1-3 drought 1GSE6583Genome-wide transcriptome analysis of Arabidopsis and siz1-3 response to drought stressLink to GEO
8.699.0E-MEXP-849-raw-cel-1181980926
8.699.0GSM128677Underwood_1-30_DC3000-10e8-7h_Rep3_ATH1GSE5520Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interactionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.2501GO:0010480The process aimed at the progression of a microsporocyte cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. A microsporocyte is a diploid (2n) cell that undergoes meiosis and forms four haploid (1n) microspores; also called microspore mother cell and, in seed plants, pollen mother cell.Link to AmiGO
0.2001GO:0048229The process whose specific outcome is the progression of the gametophyte over time, from its formation to the mature structure. The gametophyte is the gamete-producing individual or phase in the life cycle having alternation of generations. An example of this process is found in Arabidopsis thaliana.Link to AmiGO
0.1541GO:0048437The process whose specific outcome is the progression of the floral organ over time, from its formation to the mature structure.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

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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