CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g57230

Gene name AGL16 (AGAMOUS-LIKE 16)

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
1.00 100.0 At3g57230 824890 AGL16 (AGAMOUS-LIKE 16) MADS-box transcription factor. Expressed in leaf, root and stem, with higher RNA accumulation in guard cells and trichomes. S.X. H.G.
0.52 67.4 At1g34120 840311 IP5PI (INOSITOL POLYPHOSPHATE 5-PHOSPHATASE I) Encodes an inositol polyphosphate 5-phosphatase that appears to have Type I activity. It can dephosphorylate IP3(inositol(1,4,5)P3) and IP4 (inositol(1,3,4,5)P4), but it does not act on I(1)P, I(1,4)P2, or phosphatidylinositol(4,5)P2. S.X. H.G.
0.46 59.8 At5g10790 830946 UBP22 (UBIQUITIN-SPECIFIC PROTEASE 22) Encodes a ubiquitin-specific protease. S.X. H.G.
0.45 58.3 At2g01980 814729 SOS1 (SALT OVERLY SENSITIVE 1) Encodes a plasma membrane-localized Na+/H+ antiporter SOS1. Functions in the extrusion of toxic Na+ from cells and is essential for plant salt tolerance. Has 12 predicted transmembrane domains in the N-terminal region and a long cytoplasmic tail of approx. 700 aa at the C-terminal side. SOS1 interacts through its predicted cytoplasmic tail with RCD1, a regulator of oxidative-stress responses, suggesting that SOS1 might function in oxidative-stress tolerance. S.X. H.G.
0.44 57.2 At1g47310 841134 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P S.X. H.G.
0.42 53.9 At5g05700 830454 ATE1 (ARGININE-TRNA PROTEIN TRANSFERASE 1) Encodes an arginyl-tRNA:protein transferase (ATE1), a component of the N-end rule pathway that targets protein degradation through the identity of the amino-terminal residue of specific protein substrates. Arabidopsis contains two ATE genes: At5g05700/ATE1, At3g11240/ATE2. Another component of the N-end rule pathway is At5g02310/PROTEOLYSIS6 (PRT6). PRT6 and ATE were shown to regulate seed after-ripening, seedling sugar sensitivity, seedling lipid breakdown, and abscisic acid (ABA) sensitivity of germination. Mutants of ATE1 also display delayed leaf senescence. S.X. H.G.
0.42 53.9 At1g49710 841394 FUT12 (FUCOSYLTRANSFERASE 12) Encodes a protein with core α1,3-fucosyltransferase activity. S.X. H.G.
0.42 53.9 At5g23520 832417 - F:unknown;P:unknown;C:cytoplasm;FPMBO S.X. H.G.
0.41 52.4 At5g61580 836279 PFK4 (PHOSPHOFRUCTOKINASE 4) F:6-phosphofructokinase activity;P:glycolysis;C:6-phosphofructokinase complex, chloroplast;BOMPFAV S.X. H.G.
0.41 52.4 At5g43100 834326 aspartyl protease family protein F:aspartic-type endopeptidase activity;P:proteolysis;C:endomembrane system;MPFO S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
45.8 99.8 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
21.0 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.0 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.8 99.6 GSM142904 WW002_ATH1_A1-willa-CON-REP2 GSE6181 Assembly of the cell wall pectic matrix.
16.9 99.5 GSM260883 Yap_A2-AMF_Rep2 GSE10323 Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathways
16.6 99.5 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.6 99.5 GSM260882 Yap_A1-AMF_Rep2 GSE10323 Testing Arabidopsis for the presence of arbuscular mycorrhizal signalling pathways
15.0 99.4 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
14.7 99.4 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.5 99.4 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.18 7e-15 81 At4g37940 829950 AGL21 encodes a MADS box protein, highly expressed in the root. C.G. S.X.
0.10 4e-13 75 At3g57390 824906 AGL18 encodes a MADS-box containing protein likely to be a transcription factor that is expressed in endosperm and developing gametophytes. The protein sequence is most similar to that of AGL15, which is expressed in developing embryos. C.G. S.X.
0.16 4e-7 56 At2g14210 815907 AGL44 (AGAMOUS-LIKE 44) MADS box gene, transcription factor C.G. S.X.
0.09 6e-6 52 At4g24540 828556 AGL24 (AGAMOUS-LIKE 24) Encodes a MADS-box protein involved in flowering. Regulates the expression of SOC1 and is also upregulated by SOC1. Binds with IMK3 kinase domain. Phosphorylated by IMK3; likely to be a target for IMK3 kinase domain. C.G. S.X.
0.05 2e-5 50 At5g60910 836212 AGL8 (agamous-like 8) MADS box gene negatively regulated by APETALA1 C.G. S.X.
0.07 2e-5 50 At2g22630 816794 AGL17 (agamous-like 17) Encodes a MADs domain containing protein involved in promoting flowering. Loss of function mutations show delayed flowering in long days and reduced levels of LFY and AP1 expression. C.G. S.X.
0.05 4e-4 46 At5g15800 831436 SEP1 (SEPALLATA1) Encodes a MADS box transcription factor involved flower and ovule development. Functionally redundant with SEP2 and SEP3. C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.09 1e-4 48 Glycine max Gma.11362.1.S1_at AW395011 - - 1e-4 At3g57230 AGL16 (AGAMOUS-LIKE 16) C.G. S.X.
0.05 2e-1 36 Hordeum vulgare Contig2198_at Contig2198 - - 3e-6 At1g24260 SEP3 (SEPALLATA3) C.G. S.X.
0.27 8e-7 56 Oryza sativa Os08g0431900 AY345220.1 - Transcription factor MADS23 6e-6 At3g57230 AGL16 (AGAMOUS-LIKE 16) C.G. S.X.
0.43 4e-26 119 Populus trichocarpa PtpAffx.201979.1.S1_at pmrna3951 hypothetical protein - 3e-26 At3g57230 AGL16 (AGAMOUS-LIKE 16) C.G. S.X.
0.07 2e-2 40 Triticum aestivum TaAffx.143995.17.A1_at AY188331 - - 1e-3 At5g60910 AGL8 (agamous-like 8) C.G. S.X.
0.04 1e-4 46 Vitis vinifera 1609046_at CB971729 hypothetical protein LOC100256085 - 1e-13 At2g45650 AGL6 (AGAMOUS-LIKE 6) C.G. S.X.
0.14 1e-17 89 Zea mays Zm.524.1.S1_at AF112149.1 MADS box protein 2 - 6e-17 At3g57230 AGL16 (AGAMOUS-LIKE 16) C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
X GO:0010440 The process by which an unspecialized epidermal cell progresses through a series of divisions that culminate in the production of a stomatal complex.
C GO:0006355 Any process that modulates the frequency, rate or extent of DNA-dependent transcription.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
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