Gene omics information

Query gene ID At5g60540
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%ileGene/Probe IDRepr.IDGene NameFunctional DescriptionS.X.H.G.Other DB
1.00100.0At5g60540836175PDX2 (PYRIDOXINE BIOSYNTHESIS 2)Encodes a protein predicted to function in tandem with PDX1 to form glutamine amidotransferase complex with involved in vitamin B6 biosynthesis. PDX2 is predicted to function as glutaminase within the complex.S.X.H.G.
0.3643.6At5g62200836341embryo-specific protein-relatedF:molecular_function unknown;P:biological_process unknown;C:plasma membrane, anchored to membrane;PS.X.H.G.
0.071.9At3g07640819955unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PS.X.H.G.
0.020.4At3g07630819954ADT2 (arogenate dehydratase 2)Encodes a plastid-localized arogenate dehydratase involved in phenylalanine biosynthesis. Not less than six genes encoding ADT were identified in the Arabidopsis genome: ADT1 [At1g11790]; ADT2 [At3g07630]; ADT3 [At2g27820]; ADT4 [At3g44720]; ADT5 [At5g22630]; and ADT6 [At1g08250].S.X.H.G.
0.010.2At3g15660820809GRX4 (GLUTAREDOXIN 4)F:metal ion binding;P:cell redox homeostasis;C:mitochondrion;OBMPFAS.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%ileGSM IDAssay NameGSE IDExperiment Title
105.199.9GSM133760Lindsey_1-12_heart-stage-root_Rep3_ATH1GSE5730Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.899.7GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibition
24.399.6GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seeds
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Homologous genes

Paralogous genes

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HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.011e-138At5g51430835217EYE (EMBRYO YELLOW)Encodes a protein that is homologous to Cog7, a subunit of the conserved oligomeric Golgi (COG) complex, which is required for the normal morphology and function of the Golgi apparatus. It is likely to be involved in transport or retention of Golgi-localized proteins and in maintenance of Golgi morphology.C.G.S.X.
0.021e-138At5g60360836158AALP (Arabidopsis aleurain-like protease)Encodes a senescence-associated thiol protease.C.G.S.X.
0.021e-138At3g07370819925CHIP (CARBOXYL TERMINUS OF HSC70-INTERACTING PROTEIN)Encodes AtCHIP, a new class of E3 ubiquitin ligases with three tetratricopeptide repeats and a U-box domain, structurally similar to the animal CHIP proteins. Plays an important role in plant cellular metabolism under temperature stress conditions. Functions as an E3 ubiquitin ligase of protein phosphatase 2A subunits and alters plant response to abscisic acid treatment.C.G.S.X.
0.044e-136At3g52040824367unknown proteinF:molecular_function unknown;P:biological_process unknown;C:unknown;PC.G.S.X.
0.014e-136At2g39480818533PGP6 (P-GLYCOPROTEIN 6)F:ATPase activity, coupled to transmembrane movement of substances;P:transport;C:nucleus, plasma membrane;BOMFAPVC.G.S.X.
0.012e+034At5g45540834590unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PC.G.S.X.
0.022e+034At5g40770834077ATPHB3 (PROHIBITIN 3)prohibitin 3C.G.S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HFEvBSSpeciesGene IDRepr. IDGene NameFunctional descriptionEvAGI codeArabidopsis gene nameC.G.S.X.Other DB
0.273e-1893Glycine maxGma.6724.1.S1_atBQ785932--3e-18At5g60540PDX2 (PYRIDOXINE BIOSYNTHESIS 2)C.G.S.X.
0.101e-859Hordeum vulgareContig6428_s_atContig6428--4e-8At5g60540PDX2 (PYRIDOXINE BIOSYNTHESIS 2)C.G.S.X.
0.042e-1067Oryza sativaOs02g0130100AK121866.1-SNO glutamine amidotransferase family protein2e-10At5g60540PDX2 (PYRIDOXINE BIOSYNTHESIS 2)C.G.S.X.
0.271e-32141Populus trichocarpaPtp.6261.2.S1_a_atCX171066hypothetical protein-8e-33At5g60540PDX2 (PYRIDOXINE BIOSYNTHESIS 2)C.G.S.X.
0.061e-448Triticum aestivumTaAffx.67900.1.S1_atCA593774--7e-5At5g60540PDX2 (PYRIDOXINE BIOSYNTHESIS 2)C.G.S.X.
0.032e+032Vitis vinifera1609779_atCB974043hypothetical protein LOC100264483-1e+0At3g61230LIM domain-containing proteinC.G.S.X.
0.033e+032Zea maysZmAffx.1164.1.A1_atAW455679--3e+0At5g60910AGL8 (agamous-like 8)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.

ECCGO IDProcess Name
XGO:0042819The chemical reactions and pathways resulting in the formation of any of the vitamin B6 compounds; pyridoxal, pyridoxamine and pyridoxine and the active form, pyridoxal phosphate.
CGO:0008615The chemical reactions and pathways resulting in the formation of pyridoxine, 2-methyl-3-hydroxy-4,5-bis(hydroxymethyl)pyridine, one of the vitamin B6 compounds.
NGO:0009793The process whose specific outcome is the progression of the embryo over time, from zygote formation to the end of seed dormancy. An example of this process is found in Arabidopsis thaliana.
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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 IDLink to Kappa-ViewPathway Name

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

00750Link to KEGG PATHWAYVitamin B6 metabolism
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