Co-expression analysis

Gene ID At1g13400
Gene name NUB (NUBBIN)
Module size 5 genes
NF 0.26
%ile 29.9



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
0.3643.61.00At1g13400837900NUB (NUBBIN)Along with JAG, it is involved in stamen and carpel development. Expression is limited to the adaxial side of lateral organs. Activated by AGAMOUS in a cal-1, ap1-1 background.O.I.H.G.S.X.
0.5065.30.73At3g59270825096syntaxin-related family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO.I.H.G.S.X.
0.2930.30.76At5g03790831723HB51Encodes a homeodomain leucine zipper class I (HD-Zip I) meristem identity regulator that acts together with LFY to induce CAL expression. It binds to the CAL promoter proximal CAATNATTG element. LMI1 acts primarily downstream of LFY in meristem identity regulation. The interaction between LFY, LMI1 and CAL resembles a feed-forward loop transcriptional network motif. The gene also had additional LFY-independent roles in leaf morphogenesis and bract formation.O.I.H.G.S.X.
0.157.80.74At1g74890843828ARR15 (RESPONSE REGULATOR 15)Encodes a nuclear response regulator that acts as a negative regulator in cytokinin-mediated signal transduction. Transcript accumulates in leaves and roots in response to cytokinin treatment.O.I.H.G.S.X.
0.146.80.77At1g22490838855basic helix-loop-helix (bHLH) family proteinF:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PMFOO.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
48.799.8GSM239251Columbia glabrous (C24) wild type pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
39.899.8GSM131637ATGE_73_BGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
36.299.7GSM131638ATGE_73_CGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
28.999.7E-MEXP-1138-raw-cel-1432772938
28.499.7E-MEXP-285-raw-cel-440782725
28.299.7GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
28.199.7E-MEXP-285-raw-cel-440782791
27.899.7GSM239253CaMV::DME pollenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
27.699.7GSM131636ATGE_73_AGSE5632AtGenExpress: Developmental series (flowers and pollen)Link to GEO
27.299.7GSM154506Arabidopsis hydrated pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
26.399.7E-MEXP-1138-raw-cel-1432772714
24.899.6E-MEXP-1138-raw-cel-1432772970
24.799.6E-MEXP-1138-raw-cel-1432772522
24.399.6E-MEXP-1138-raw-cel-1432773322
23.999.6E-MEXP-1138-raw-cel-1432772906
22.899.6E-MEXP-1138-raw-cel-1432773194
22.799.6E-MEXP-1138-raw-cel-1432773354
22.199.6GSM154505Arabidopsis hydrated pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
21.399.6E-MEXP-1138-raw-cel-1432773258
20.999.6E-MEXP-1138-raw-cel-1432772810
20.699.6E-MEXP-1138-raw-cel-1432772682
20.099.6E-MEXP-1138-raw-cel-1432772650
19.999.6E-MEXP-1138-raw-cel-1432773162
19.799.6GSM239254CaMV::DME stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
19.499.6E-MEXP-1138-raw-cel-1432772554
19.099.5GSM154504Arabidopsis desiccated mature pollen grains rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
18.599.5E-MEXP-1138-raw-cel-1432773034
18.299.5E-MEXP-1138-raw-cel-1432773066
18.099.5E-MEXP-1138-raw-cel-1432772586
17.899.5E-MEXP-1138-raw-cel-1432772874
17.499.5E-MEXP-1138-raw-cel-1432772778
17.099.5GSM154503Arabidopsis desiccated mature pollen grains rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
16.799.5E-MEXP-1138-raw-cel-1432773130
16.599.5E-MEXP-1138-raw-cel-1432772618
16.199.5E-MEXP-1138-raw-cel-1432773226
16.199.5E-MEXP-1138-raw-cel-1432773290
15.999.5E-MEXP-1138-raw-cel-1432772842
15.899.5E-ATMX-35-raw-cel-1574334832
15.599.5E-MEXP-1138-raw-cel-1432772746
15.399.4E-MEXP-1138-raw-cel-1432773002
14.399.4E-MEXP-1138-raw-cel-1432773098
14.099.4GSM142740DH001_ATH1_A7-MPG1GSE6162Transcriptome analysis of Arabidopsis microgametogenesisLink to GEO
13.399.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
13.099.4GSM154508Arabidopsis growing pollen tubes rep2GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
11.799.3GSM154507Arabidopsis growing pollen tubes rep1GSE6696Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in ArabidopsisLink to GEO
11.499.3E-ATMX-35-raw-cel-1574334800
11.399.3GSM239252Columbia glabrous (C24) wild type stamenGSE9408Identification of putative Arabidopsis DEMETER target genes by GeneChip AnalysisLink to GEO
11.099.2E-ATMX-35-raw-cel-1574334816
10.499.2GSM184923Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2GSE7641Expression analysis of root cell-types after treatment with saltLink to GEO
10.299.2E-ATMX-35-raw-cel-1574334880
10.299.2GSM142596DB001_ATH1_A6-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
9.999.1E-ATMX-1-raw-cel-1112746095
9.999.1E-MEXP-1138-raw-cel-1432773386
9.399.1GSM142594DB001_ATH1_A4-Brown-calGSE6148The trans-differentiation of cultured Arabidopsis cellsLink to GEO
8.999.0GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.3331GO:0010434The process that gives rise to a bract. This process pertains to the initial formation of a structure from unspecified parts. A bract is a leaf, usually different in form from the foliage leaves, subtending a flower or inflorescence.Link to AmiGO
0.1431GO:0048653The process whose specific outcome is the progression of the anther over time, from its formation to the mature structure.Link to AmiGO
0.1001GO:0048440The process whose specific outcome is the progression of the carpel over time, from its formation to the mature structure. A carpel is an organ (generally believed to be a modified foliar unit) at the centre of a flower, bearing one or more ovules and having its margins fused together or with other carpels to enclose the ovule in an ovary, and consisting also of a stigma and usually a style.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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