Co-expression analysis

Gene ID At2g41260
Gene name M17
Module size 33 genes
NF 0.52
%ile 73.5



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
0.7284.81.00At2g41260818725M17Late-embryogenesis-abundant gene. Involved in the acquisition of desiccation tolerance during late phase of embryogenesis.O.I.H.G.S.X.
0.7888.60.80At1g75830843916LCR67Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant defensin (PDF) family with the following members: At1g75830/PDF1.1, At5g44420/PDF1.2a, At2g26020/PDF1.2b, At5g44430/PDF1.2c, At2g26010/PDF1.3, At1g19610/PDF1.4, At1g55010/PDF1.5, At2g02120/PDF2.1, At2g02100/PDF2.2, At2g02130/PDF2.3, At1g61070/PDF2.4, At5g63660/PDF2.5, At2g02140/PDF2.6, At5g38330/PDF3.1 and At4g30070/PDF3.2.O.I.H.G.S.X.
0.7385.50.67At3g19920821530unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO.I.H.G.S.X.
0.6982.90.62At2g36640818236ATECP63 (EMBRYONIC CELL PROTEIN 63)Encodes putative phosphotyrosine protein belonging to late embryogenesis abundant (LEA) protein in group 3 that might be involved in maturation and desiccation tolerance of seeds. RFLP and CAPS mapping place it on chromosome 4 but the nucleotide sequence maps it to chromosome 2.O.I.H.G.S.X.
0.6882.20.60At1g22600838866-F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MPFO.I.H.G.S.X.
0.6579.60.61At5g44310834454late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:unknown;OMBFPAVO.I.H.G.S.X.
0.6478.90.63At5g62490836369ATHVA22BPart of the AtHVA22 family. Protein expression is ABA- and stress-inducible.O.I.H.G.S.X.
0.6378.10.49At1g52690841701late embryogenesis abundant protein, putative / LEA protein, putativeF:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;PBMOFVAO.I.H.G.S.X.
0.6277.30.59At5g66780836811unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PO.I.H.G.S.X.
0.6176.70.62At3g53040824470late embryogenesis abundant protein, putative / LEA protein, putativeF:unknown;P:embryonic development ending in seed dormancy;C:unknown;MBOFPAVO.I.H.G.S.X.
0.6176.70.50At1g32560840150late embryogenesis abundant group 1 domain-containing protein / LEA group 1 domain-containing proteinF:molecular_function unknown;P:embryonic development ending in seed dormancy, embryonic development;C:cellular_component unknown;PMOO.I.H.G.S.X.
0.6176.70.69At2g41280818727M10Encodes a hydrophilic protein similar to Late Embryogenesis Activated (LEA) proteins expressed during embryogenesis, which are thought to be involved in the acquisition of dessication tolerance.O.I.H.G.S.X.
0.5974.70.66At1g16730838244unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POO.I.H.G.S.X.
0.5974.70.63At2g40170818608GEA6 (LATE EMBRYOGENESIS ABUNDANT 6)Encodes a group 1 LEA gene that is activated by direct binding of ABI5 to its promoter and is involved in response to ABA. Is required for normal seed development. Involved in regulating the timing of dessication tolerance and rate of water loss during seed maturation.O.I.H.G.S.X.
0.5773.80.52At5g07330830624unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PO.I.H.G.S.X.
0.5166.30.53At1g03790839408SOM (SOMNUS)Encodes SOMNUS (SOM), a nucleus-localized CCCH-type zinc finger protein. SOM negatively regulates light-dependent seed germination downstream of PIL5 (AT2G20180).O.I.H.G.S.X.
0.5166.30.51At5g04000830279unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.5065.30.56At3g54940824659--O.I.H.G.S.X.
0.4963.50.55At1g62710842569BETA-VPE (BETA VACUOLAR PROCESSING ENZYME)Encodes a vacuolar processing enzyme belonging to a novel group of cysteine proteases that is expressed specifically in seeds and is essential for the proper processing of storage proteins.O.I.H.G.S.X.
0.4862.50.52At1g72100843541late embryogenesis abundant domain-containing protein / LEA domain-containing proteinF:unknown;P:embryonic development ending in seed dormancy;C:endomembrane system;BPOMFAVO.I.H.G.S.X.
0.4862.50.51At2g28420817390lactoylglutathione lyase family protein / glyoxalase I family proteinF:lactoylglutathione lyase activity;P:carbohydrate metabolic process;C:cellular_component unknown;BOPMFAO.I.H.G.S.X.
0.4862.50.54At5g24130832478unknown proteinF:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PMO.I.H.G.S.X.
0.4761.20.64At2g23240816856plant EC metallothionein-like family 15 proteinF:zinc ion binding;P:biological_process unknown;C:unknown;POMBO.I.H.G.S.X.
0.4761.20.53At2g21820816718unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.4659.80.46At2g25890817130glycine-rich protein / oleosinF:molecular_function unknown;P:lipid storage;C:monolayer-surrounded lipid storage body, integral to membrane, membrane;PBO.I.H.G.S.X.
0.4558.30.47At5g51760835250AHG1 (ABA-hypersensitive germination 1)Encodes AHG1 (ABA-hypersensitive germination 1), a putative protein phosphatase 2C (PP2C). Expressed in seeds. AHG1 functions in seed development and germination.O.I.H.G.S.X.
0.4558.30.45At3g24650822061ABI3 (ABA INSENSITIVE 3)Homologous to the maize transcription factor Viviparous-1. Full length ABI3 protein binds to the highly conserved RY motif [DNA motif CATGCA(TG)], present in many seed-specific promoters, and the B3 domains of this transcription factor is necessary for the specific interaction with the RY element. Transcriptional activity of ABI3 requires the B3 DNA-binding domain and an activation domain. In addition to the known N-terminal-located activation domain, a second transcription activation domain was found in the B1 region of ABI3. ABI3 is essential for seed maturation. Regulator of the transition between embryo maturation and early seedling development. Putative seed-specific transcriptional activator. Mutants exhibit decreased responsiveness to ABA suggesting that ABI3 protein participates in the ABA perception/transduction cascade. Based on double mutant analyses, ABI3 interacts genetically with both FUS3 and LEC1 and is involved in controlling accumulation of chlorophyll and anthocyanins, sensitivity to abscisic acid, and expression of the members of the 12S storage protein gene family. In addition, both FUS3 and LEC1 regulate positively the abundance of the ABI3 protein in the seed.O.I.H.G.S.X.
0.4355.30.45At3g58450825014universal stress protein (USP) family proteinF:molecular_function unknown;P:response to stress;C:cellular_component unknown;BPAOFMO.I.H.G.S.X.
0.4253.90.53At1g04560839491AWPM-19-like membrane family proteinF:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PO.I.H.G.S.X.
0.4152.40.44At5g01300830983phosphatidylethanolamine-binding family proteinF:phosphatidylethanolamine binding;P:biological_process unknown;C:cellular_component unknown;BOAPFO.I.H.G.S.X.
0.4050.80.55At1g23070838915unknown proteinF:unknown;P:biological_process unknown;C:unknown;MPFOO.I.H.G.S.X.
0.3948.40.47At1g54870841926binding / catalytic/ oxidoreductaseF:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:chloroplast;BOMFPAVO.I.H.G.S.X.
0.3643.60.50At1g48130841231ATPER1encodes a protein similar to the 1-cysteine (1-Cys) peroxiredoxin family of antioxidants. Expression is limited to seed (aleurone and embryo) and is not induced by ABA or drought.O.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
124.299.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
112.999.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
109.999.9GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
108.199.9GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.599.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
53.099.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.599.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.499.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
50.599.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
50.499.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.999.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.399.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
47.899.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
46.799.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.099.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.099.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
42.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.199.8GSM205432Col_ leaf_ wildtype_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
37.899.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
34.899.7GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
33.199.7GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.999.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
27.399.7GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
24.399.6GSM226530LCOLUMELLASBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular functionLink to GEO
24.199.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
21.599.6GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
19.099.5GSM284398Arabidopsis GGSc2GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
18.299.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
16.899.5GSM133766Lindsey_1-18_torpedo-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
15.099.4GSM184537Whole roots 2hr KCl control treated then frozen, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.999.4GSM284397Arabidopsis GGSc1GSE11262Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.Link to GEO
12.099.3GSM311284Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stageLink to GEO
11.199.2GSM142735DH001_ATH1_A2-BCP1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
10.799.2GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
9.799.1GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
9.299.1GSM176876AWP_AL_Txed_1GSE7334Microarray Analysis of Arabidopsis Genome Response to Aluminum StressLink to GEO
8.799.0GSM142734DH001_ATH1_A1-UNM1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.0763GO:0009790The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.Link to AmiGO
0.0571GO:0048700The process by which a seed acquires tolerance to severe drying, before entering into a dry, either dormant or quiescent state.Link to AmiGO
0.0561GO:0031930A series of molecular signals that forms a pathway of communication from the mitochondria to the nucleus and initiates cellular changes in response to changes in mitochondrial function.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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