CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At3g23940

Gene name dehydratase family

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 At3g23940 821977 dehydratase family F:catalytic activity, dihydroxy-acid dehydratase activity;P:branched chain family amino acid biosynthetic process, isoleucine biosynthetic process, metabolic process, valine biosynthetic process;C:chloroplast stroma, chloroplast;OBFAPM S.X. H.G.
0.61 76.7 At4g24830 828586 arginosuccinate synthase family F:argininosuccinate synthase activity, ATP binding;P:arginine biosynthetic process;C:chloroplast stroma, chloroplast;OBMAFP S.X. H.G.
0.56 73.0 At4g26900 828797 AT-HF (HIS HF) encodes a glutamine amidotransferase and cyclase, catalyzes the fifth and sixth steps of the histidine biosynthetic pathway S.X. H.G.
0.54 69.5 At3g49080 824070 ribosomal protein S9 family protein F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, ribosome, intracellular;BOMAPFV S.X. H.G.
0.53 68.6 At1g64880 842796 ribosomal protein S5 family protein F:structural constituent of ribosome, RNA binding;P:translation;C:ribosome, Golgi apparatus, intracellular;OBMFAPV S.X. H.G.
0.53 68.6 At5g47210 834767 nuclear RNA-binding protein, putative F:RNA binding;P:biological_process unknown;C:plasma membrane;MBOPFVA S.X. H.G.
0.51 66.3 At3g18130 821338 RACK1C_AT (RECEPTOR FOR ACTIVATED C KINASE 1 C) Encodes a protein with similarity to mammalian RACKs. RACKs function to shuttle activated protein kinase C to different subcellular sites and may also function as a scaffold through physical interactions with other proteins. RACK1C has no phenotype on its own and probably acts redundantly with RACK1A and RACK1B. S.X. H.G.
0.50 65.3 At3g11710 820343 ATKRS-1 (ARABIDOPSIS THALIANA LYSYL-TRNA SYNTHETASE 1) F:nucleotide binding, aminoacyl-tRNA ligase activity, lysine-tRNA ligase activity, ATP binding, nucleic acid binding;P:lysyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMFAP S.X. H.G.
0.48 62.5 At1g16350 838204 inosine-5'-monophosphate dehydrogenase, putative F:IMP dehydrogenase activity, catalytic activity;P:GMP biosynthetic process, metabolic process;C:cellular_component unknown;OBMFAPV S.X. H.G.
0.48 62.5 At3g03960 819549 chaperonin, putative F:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:membrane;BOMFAP 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
81.5 99.9 GSM133761 Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
37.7 99.7 GSM284385 Arabidopsis GEP6 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
34.8 99.7 GSM311288 Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
32.6 99.7 GSM311277 Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
32.0 99.7 GSM284384 Arabidopsis GEP5 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
30.8 99.7 GSM311274 Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
26.1 99.7 GSM265418 Arabidopsis, root, longitudinal zone 1, standard conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
23.5 99.6 GSM311278 Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
23.4 99.6 GSM133975 Birnbaum_1-5_StageI-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
23.2 99.6 GSM284390 Arabidopsis GPE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
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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
0.01 2e-1 38 At5g05720 830456 RNA recognition motif (RRM)-containing protein F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MFOPB C.G. S.X.
0.01 2e-1 38 At4g13430 826975 IIL1 (ISOPROPYL MALATE ISOMERASE LARGE SUBUNIT 1) F:4 iron, 4 sulfur cluster binding, lyase activity, hydro-lyase activity;P:response to cadmium ion, metabolic process;C:chloroplast stroma, chloroplast;OBFMAP C.G. S.X.
0.02 2e-1 38 At3g15630 820805 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P C.G. S.X.
0.02 9e-1 36 At5g19257 6241193 unknown protein F:unknown;P:unknown;C:unknown C.G. S.X.
0.01 9e-1 36 At3g57530 824920 CPK32 (CALCIUM-DEPENDENT PROTEIN KINASE 32) Calcium-dependent Protein Kinase. ABA signaling component that regulates the ABA-responsive gene expression via ABF4. AtCPK32 has autophosphorylation activity and can phosphorylate ABF4 in vitro C.G. S.X.
0.01 4e+0 34 Atmg00480 - - Encodes subunit 8 of the mitochondrial F(O) ATP synthase complex. C.G. S.X.
0.01 4e+0 34 At5g37500 833728 GORK (GATED OUTWARDLY-RECTIFYING K+ CHANNEL) encodes a guard cell outward potassium channel. Mutants have increased water consumption and limited stomatal closure in response to abscisic and jasmonic acids. It forms a heteromeric K(out) channels with SKOR. The gene is expressed ubiquitously in root and the vasculature and guard cells of leaves. Expression is suppressed during agrobacterium-induced tumor formation and increased in response to water deprivation and cold. C.G. S.X.
0.01 4e+0 34 At5g48375 834891 TGG3 (THIOGLUCOSIDE GLUCOSIDASE 3) Is a myrosinase pseudogene that codes for a truncated and frameshifted protein. Although TGG3 apparently is a pseudogene, its mRNA is expressed specifically in stamen and petal according to RT-PCR analysis. Western analysis shows no band of the size expected for a TGG3 protein. C.G. S.X.
0.01 4e+0 34 At5g03170 831914 FLA11 F:unknown;P:unknown;C:anchored to membrane;PBOMAF 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
0.27 1e-46 188 Glycine max Gma.6764.1.S1_at AW394737 - - 6e-47 At3g23940 dehydratase family C.G. S.X.
0.35 2e-49 196 Hordeum vulgare Contig8903_at Contig8903 - - 5e-49 At3g23940 dehydratase family C.G. S.X.
0.38 7e-40 167 Oryza sativa Os08g0559600 AK102083.1 - - 4e-40 At3g23940 dehydratase family C.G. S.X.
0.55 4e-130 466 Populus trichocarpa PtpAffx.200204.1.S1_at pmrna386 hypothetical protein - 3e-130 At3g23940 dehydratase family C.G. S.X.
0.25 1e-33 145 Triticum aestivum Ta.3201.1.S1_at BT009094.1 - - 2e-33 At3g23940 dehydratase family C.G. S.X.
0.33 7e-42 171 Vitis vinifera 1619104_s_at CD004014 hypothetical protein LOC100242520 - 1e-41 At3g23940 dehydratase family C.G. S.X.
0.26 9e-33 141 Zea mays Zm.12728.1.A1_at CA399819 hypothetical protein LOC100273676 - 3e-32 At3g23940 dehydratase family 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
L GO:0008152 The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
L GO:0009082 The chemical reactions and pathways resulting in the formation of amino acids containing a branched carbon skeleton, comprising isoleucine, leucine and valine.
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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
00009 Leucine, valine, isoleucine and alanine biosynthesis

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
00290 Valine, leucine and isoleucine biosynthesis
00770 Pantothenate and CoA biosynthesis
01065 Biosynthesis of alkaloids derived from histidine and purine
01100 Metabolic pathways
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