CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g23050

Gene name IAA7 (INDOLE-3-ACETIC ACID 7)

Module size 5 genes

NF 0.18

%ile 15.0

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : 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
0.40 50.8 1.00 At3g23050 821879 IAA7 (INDOLE-3-ACETIC ACID 7) Transcription regulator acting as repressor of auxin-inducible gene expression. Plays role in the control of gravitropic growth and development in light-grown seedlings. Auxin induces the degradation of the protein in a dosage-dependent manner in a process mediated by AtRac1. Auxin induced the relocalization of the protein within the nucleus from a diffused nucleoplasmic pattern to a discrete particulated pattern named nuclear protein bodies or NPB in a process also mediated by Rac1. Colocalizes with SCF, CSN and 26S proteasome components. O.I. H.G. S.X.
0.29 30.3 0.80 At1g01120 839395 KCS1 (3-KETOACYL-COA SYNTHASE 1) Encodes a condensing enzyme KCS1 (3-ketoacyl-CoA synthase 1) which is involved in the critical fatty acid elongation process in wax biosynthesis. O.I. H.G. S.X.
0.29 30.3 0.86 At2g06850 815247 EXGT-A1 (ENDOXYLOGLUCAN TRANSFERASE) endoxyloglucan transferase (EXGT-A1) gene O.I. H.G. S.X.
0.25 22.6 0.80 At4g38690 830025 1-phosphatidylinositol phosphodiesterase-related F:phospholipase C activity, phosphoric diester hydrolase activity;P:intracellular signaling cascade, N-terminal protein myristoylation, lipid metabolic process;C:cellular_component unknown;BFMPO O.I. H.G. S.X.
0.09 2.8 0.82 At1g68530 843182 KCS6 (3-KETOACYL-COA SYNTHASE 6) Encodes KCS6, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids). 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
36.8 99.7 GSM133759 Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
7.3 98.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
7.2 98.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
7.1 98.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
7.0 98.7 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
6.8 98.7 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
6.2 98.6 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
6.1 98.5 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
6.1 98.5 GSM133760 Lindsey_1-12_heart-stage-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
5.5 98.3 GSM133756 Lindsey_1-10_heart-stage-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
5.3 98.3 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0009645 A 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 a low light intensity stimulus. Low light intensity is defined as a level of electromagnetic radiation at or below 0.1 micromols/m2.
0.190 2 GO:0000038 The chemical reactions and pathways involving fatty acids with a chain length of C18 or greater.
0.190 2 GO:0010025 The chemical reactions and pathways resulting in the formation of wax, which includes C16 and C18 fatty acids.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

Inter-species module comparison

A co-expression module including the maize gene, Zm.3607.1.A1_at, orthologous to the query gene, At3g23050

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.91 99.0 Zm.3607.1.A1_at - IAA30 - auxin-responsive Aux/IAA family member - 1e-14 At4g14550 IAA14 (INDOLE-3-ACETIC ACID INDUCIBLE 14) O.I. H.G. S.X.
0.57 75.1 Zm.2602.1.S1_at - hypothetical protein LOC100217277 - 1e-2 At5g24340 3'-5' exonuclease domain-containing protein O.I. H.G. S.X.
0.42 51.3 Zm.8576.1.A1_at - caffeic acid 3-O-methyltransferase - 4e-2 At5g54160 ATOMT1 (O-METHYLTRANSFERASE 1) O.I. H.G. S.X.
0.40 48.5 Zm.522.1.S1_at - cellulose synthase7 - 1e-38 At2g21770 CESA9 (CELLULOSE SYNTHASE A9) O.I. H.G. S.X.
0.32 33.4 Zm.10123.1.S1_at - heat- and acid-stable phosphoprotein - 3e-14 At5g46020 unknown protein O.I. H.G. S.X.
0.31 31.6 Zm.545.1.S1_at - glutathione S-transferase GST 15 - 2e+0 At3g59370 unknown protein O.I. H.G. S.X.
0.29 28.1 Zm.19149.1.A1_at - - - 2e-1 At3g44020 thylakoid lumenal P17.1 protein O.I. H.G. S.X.
0.25 21.3 Zm.5729.1.A1_at - peptidoglycan binding domain containing protein - 3e-23 At4g13670 PTAC5 (PLASTID TRANSCRIPTIONALLY ACTIVE5) O.I. H.G. S.X.
0.23 18.6 Zm.6051.1.S1_a_at - - - 2e+0 At1g72430 auxin-responsive protein-related O.I. H.G. S.X.
0.21 15.5 Zm.14622.2.S1_at - ubiquinone biosynthesis methyltransferase COQ5 - 1e-5 At5g57300 UbiE/COQ5 methyltransferase family protein O.I. H.G. S.X.
0.14 7.7 Zm.14476.2.A1_at - Protein disulfide isomerase - 1e-5 At3g54960 ATPDIL1-3 (PDI-LIKE 1-3) O.I. H.G. S.X.

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera

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