Co-expression analysis

Gene ID At3g57010
Gene name strictosidine synthase family protein
Module size 6 genes
NF 0.29
%ile 35.2



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
0.3338.11.00At3g57010824868strictosidine synthase family proteinF:strictosidine synthase activity;P:alkaloid biosynthetic process, biosynthetic process;C:endoplasmic reticulum;PMBOAO.I.H.G.S.X.
0.5773.80.67At2g47460819359MYB12 (MYB DOMAIN PROTEIN 12)"MYB12 belongs to subgroup 7 of the R2R3-MYB family. It strongly activates the promoters of chalcone synthase (CHS), flavanone 3-hydroxylase (F3H), flavonol synthase (FLS) and - to a lesser extent - chalcone flavanone isomerase (CHI), but cannot activate the promoters of flavonoid-3'hydroxylase (F3'H) and dihydroflavonol 4-reductase (DF). The activation requires a functional MYB recognition element (MRE). Results from the myb12-1f allele indicate that an activation domain might be present in the C-terminus. Overexpression or knock-out plants do not show any obvious phenotype under greenhouse conditions. Young myb12-ko seedlings contain reduced amounts of flavonoids (quercetin and kaempferol), while seedlings as well as leaves of MYB12-OX plants displayed an increased flavonoid content. They did not show any significant difference in anthocyanin content. Expression of CHS and FLS shows a clear correlation to MYB12 expression levels. CHI and F3H show increased transcript levels in the MYB12-OX lines, but no differences in the knock-out. Even in the absence of functional MYB12, flavonol biosynthesis is not completely absent, suggesting functional redundancy. " The redundant factors are MYB11 and MYB111 although MYB12 is primarily required for flavonol biosynthesis in roots.O.I.H.G.S.X.
0.4457.20.78At2g41660818764MIZ1 (mizu-kussei 1)Essential for hydrotropism in roots. Mutant roots are defective in hydrotropism, and have slightly reduced phototropism and modified wavy growth response. Has normal gravitropism and root elongation.O.I.H.G.S.X.
0.2930.30.65At5g44110834434POP1Encodes a member of the NAP subfamily of ABC transporters.O.I.H.G.S.X.
0.1811.40.67At1g77450844081anac032 (Arabidopsis NAC domain containing protein 32)F:transcription factor activity;P:multicellular organismal development, regulation of transcription;C:cellular_component unknown;PO.I.H.G.S.X.
0.135.80.64At5g10830830950embryo-abundant protein-relatedF:methyltransferase activity;P:metabolic process;C:cellular_component unknown;BPFMOAO.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
75.299.9GSM205428met1-3_leaf_fourth-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
72.499.9GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
71.399.9GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
70.999.9GSM205364met1-3_leaf_second-selfed generation_rep01GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
60.799.8GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
59.199.8GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
58.899.8GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.799.8GSM205430met1-3_leaf_fourth-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
55.499.8GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
55.399.8GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.899.8GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
52.299.8GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
51.299.8GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
49.799.8GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
48.299.8GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
47.399.8GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
46.499.8GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
43.399.8GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
41.699.8GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
40.899.8GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
38.399.8GSM205426met1-3_leaf_second-selfed generation_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
38.299.8GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.799.7GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
35.599.7GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
30.099.7GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
29.699.7GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
29.499.7GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
27.299.7GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
26.099.7GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
24.199.6E-MEXP-1138-raw-cel-1432772618
23.999.6E-MEXP-1138-raw-cel-1432772554
23.999.6GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
23.699.6GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
23.099.6E-MEXP-1138-raw-cel-1432772522
22.899.6E-MEXP-1138-raw-cel-1432772650
22.299.6E-MEXP-1138-raw-cel-1432772938
22.299.6E-MEXP-1138-raw-cel-1432772714
22.099.6E-MEXP-1138-raw-cel-1432772682
22.099.6E-MEXP-1138-raw-cel-1432773226
21.499.6E-MEXP-1138-raw-cel-1432773002
21.299.6E-MEXP-1138-raw-cel-1432772586
21.099.6GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
20.299.6E-MEXP-1138-raw-cel-1432773354
19.699.6E-MEXP-1138-raw-cel-1432773066
19.599.6E-MEXP-1138-raw-cel-1432773098
18.899.5E-MEXP-1138-raw-cel-1432773130
18.499.5E-MEXP-1138-raw-cel-1432773162
18.299.5GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
18.099.5E-ATMX-35-raw-cel-1574334800
18.099.5E-MEXP-1138-raw-cel-1432773194
17.499.5E-MEXP-1138-raw-cel-1432772810
16.899.5E-MEXP-1138-raw-cel-1432772842
16.599.5GSM260883Yap_A2-AMF_Rep2GSE10323Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathwaysLink to GEO
16.399.5GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
16.299.5E-MEXP-1138-raw-cel-1432773258
16.299.5E-MEXP-1138-raw-cel-1432772746
16.299.5E-MEXP-1138-raw-cel-1432772778
15.799.5GSM184551Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
15.499.5E-MEXP-285-raw-cel-440782725
15.299.4E-MEXP-1138-raw-cel-1432773322
15.199.4E-MEXP-509-raw-cel-829148561
15.099.4GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
14.999.4E-MEXP-1138-raw-cel-1432773034
14.999.4E-MEXP-1138-raw-cel-1432772874
14.999.4E-ATMX-35-raw-cel-1574334816
14.999.4E-MEXP-285-raw-cel-440782791
14.699.4E-MEXP-1138-raw-cel-1432773290
14.699.4E-MEXP-1138-raw-cel-1432772906
14.499.4E-ATMX-35-raw-cel-1574334832
13.799.4E-MEXP-1138-raw-cel-1432772970
13.599.4GSM260882Yap_A1-AMF_Rep2GSE10323Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathwaysLink to GEO
13.399.4E-MEXP-509-raw-cel-829148525
13.299.4GSM133762Lindsey_1-14_torpedo-root_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO
11.999.3E-MEXP-1138-raw-cel-1432773386
11.099.2GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
10.599.2GSM184497Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
10.099.2GSM260881Yap_A2-AMFGSE10323Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathwaysLink to GEO
9.499.1E-MEXP-509-raw-cel-829148632
9.499.1GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
9.299.1E-MEXP-509-raw-cel-829148090
8.999.0GSM133773Lindsey_1-25_torpedo-meristem_Rep1_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissuesLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1051GO:0009821The chemical reactions and pathways resulting in the formation of alkaloids, nitrogen-containing natural products which are not otherwise classified as nonprotein amino acids, amines, peptides, amines, cyanogenic glycosides, glucosinolates, cofactors, phytohormones, or primary metabolite (such as purine or pyrimidine bases).Link to AmiGO
0.0571GO:0009813The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.Link to AmiGO
0.0431GO:0010218A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of far red light stimulus. Far red light is electromagnetic radiation of wavelength 700-800nm. An example of this response is seen at the beginning of many plant species developmental stages. These include germination, and the point when cotyledon expansion is triggered. In certain species these processes take place in response to absorption of red light by the pigment molecule phytochrome, but the signal can be reversed by exposure to far red light. During the initial phase the phytochrome molecule is only present in the red light absorbing form, but on absorption of red light it changes to a far red light absorbing form, triggering progress through development. An immediate short period of exposure to far red light entirely returns the pigment to its initial state and prevents triggering of the developmental process. A thirty minute break between red and subsequent far red light exposure renders the red light effect irreversible, and development then occurs regardless of whether far red light exposure subsequently occurs.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



Back to the CoP portal site

Back to the KAGIANA project homepage