Gene omics information

Query gene ID At4g24190
Gene name SHD (SHEPHERD)
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
1.00100.0At4g24190828520SHD (SHEPHERD)encodes an ortholog of GRP94, an ER-resident HSP90-like protein and is involved in regulation of meristem size and organization. Single and double mutant analyses suggest that SHD may be required for the correct folding and/or complex formation of CLV proteins. Lines carrying recessive mutations in this locus exhibits expanded shoot meristems, disorganized root meristems, and defective pollen tube elongation. Transcript is detected in all tissues examined and is not induced by heat. Endoplasmin supports the protein secretory pathway and has a role in proliferating tissues.S.X.H.G.
0.8994.6At5g61790836301calnexin 1 (CNX1)F:unfolded protein binding, calcium ion binding;P:protein folding;C:in 8 components;MOPFBVAS.X.H.G.
0.8693.1At1g09210837441calreticulin 2 (CRT2)F:unfolded protein binding, calcium ion binding;P:response to oxidative stress, response to salt stress;C:mitochondrion, endoplasmic reticulum, vacuole;MOFPBVAS.X.H.G.
0.7385.5At5g28540832950BIP1Encodes the luminal binding protein BiP, an ER-localized member of the HSP70 family. BiP is composed of an N-terminal ATP binding domain and a C-terminal domain that binds to hydrophobic patches on improperly/incompletely folded proteins in an ATP-dependent manner.S.X.H.G.
0.4050.8At2g47470819360UNE5 (UNFERTILIZED EMBRYO SAC 5)Encodes a protein disulfide isomerase-like (PDIL) protein, a member of a multigene family within the thioredoxin (TRX) superfamily. Transcript levels for this gene are up-regulated in response to three different chemical inducers of ER stress (dithiothreitol, beta-mercaptoethanol, and tunicamycin). AtIRE1-2 does not appear to be required for this response, but the atbzip60 mutant has a diminished response.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%ileGSM IDAssay NameGSE IDExperiment Title
16.199.5GSM226535L5SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular function
12.599.3GSM226534L4SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.499.3E-NASC-76-raw-cel-1359878900
11.299.2GSM311276Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stage
10.899.2GSM311275Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1GSE12402Expression data from Arabidopsis seed compartments at the pre-globular stage
10.299.2GSM226536L6SBGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.899.1E-ATMX-34-raw-cel-1563627293
9.299.1GSM252690Section of Root from 270 mm to 340 mm harvested immediately rep1GSE9996Organ regeneration in plants is independent of stem cell niche activity
9.099.1GSM226547Slice5JWGSE8934A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.699.0E-NASC-76-raw-cel-1359879158
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Homologous genes



Paralogous genes



Click Gene ID to show a list of homologous genes.

HFEvBSGene IDRepr. IDGene NameFunctional descriptionC.G.S.X.Other DB
0.043e-757At5g52640835341ATHSP90.1 (HEAT SHOCK PROTEIN 90.1)Encodes a cytosolic heat shock protein AtHSP90.1. AtHSP90.1 interacts with disease resistance signaling components SGT1b and RAR1 and is required for RPS2-mediated resistance.C.G.S.X.
0.011e-346At2g04030814930CR88Encodes a chloroplast-targeted 90-kDa heat shock protein located in the stroma involved in red-light mediated deetiolation response. Mutants are resistant to chlorate, have elongated hypocotyls in light, and affect the expression of NR2, CAB, and RBCS but NOT NR1 and NiR.C.G.S.X.
0.048e-240At5g56010835699HSP81-3a member of heat shock protein 90 (HSP90) gene family. Expressed in all tissues and abundant in root apical meristem, pollen and tapetum. Expression is NOT heat-induced but induced by IAA and NaCl.C.G.S.X.
0.018e-240At5g56000835698heat shock protein 81-4 (HSP81-4)F:unfolded protein binding, ATP binding;P:protein folding;C:cytosol, apoplast, cell wall, nucleus, plasma membrane;OMBFPAVC.G.S.X.
0.018e-240At5g46100834651pentatricopeptide (PPR) repeat-containing proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POMFBAC.G.S.X.
0.013e-138At5g26860832744LON1 (LON PROTEASE 1)Encodes a member of the Lon protease-like proteins (Lon1/At5g26860, Lon2/At5g47040, Lon3/At3g05780, Lon4/At3g05790). Lon is a multifunctional ATP-dependent protease which exists in bacteria, archaea and within organelles in eukaryotic cells. Lon proteases are responsible for the degradation of abnormal, damaged and unstable proteins.C.G.S.X.
0.013e-138At5g37320833706unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PC.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
0.475e-56220Glycine maxGma.18032.1.S1_atBG650211--3e-56At4g24190SHD (SHEPHERD)C.G.S.X.
0.429e-68258Hordeum vulgareContig91_atContig91--2e-67At4g24190SHD (SHEPHERD)C.G.S.X.
0.383e-67258Oryza sativaOs06g0716700AK063385.1-Endoplasmin homolog precursor (GRP94 homolog)2e-67At4g24190SHD (SHEPHERD)C.G.S.X.
0.366e-96353Populus trichocarpaPtpAffx.98826.1.S1_s_atCX653746hypothetical protein-2e-96At4g24190SHD (SHEPHERD)C.G.S.X.
0.414e-50200Triticum aestivumTa.28735.1.S1_a_atBJ250459--5e-50At4g24190SHD (SHEPHERD)C.G.S.X.
0.244e-75282Vitis vinifera1610896_atCF204993.1hypothetical protein LOC100267648-4e-75At4g24190SHD (SHEPHERD)C.G.S.X.
0.411e-57224Zea maysZm.5048.3.S1_x_atAY103537.1hypothetical protein LOC100279926-3e-57At4g24190SHD (SHEPHERD)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:0009414A 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 water deprivation stimulus, prolonged deprivation of water.
XGO:0009651A 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 stimulus indicating an increase or decrease in the concentration of salt (particularly but not exclusively sodium and chloride ions) in the environment.
XGO:0046686A 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 cadmium (Cd) ion stimulus.
XGO:0009306The controlled release of proteins from a cell or group of cells.
XGO:0009409A 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 cold stimulus, a temperature stimulus below the optimal temperature for that organism.
XGO:0009934Any process that modulates the frequency, rate or extent of meristem organization.
XGO:0010075Any process involved in maintaining the size and shape of a meristem.
CGO:0006457The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
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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.

KEGG PATHWAY IDLink to KEGG PATHWAYPathway Name
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