Co-expression analysis

Gene ID Contig416_x_at
Gene name
Homology with ArabidopsisSimilar to At4g24190: SHD (SHEPHERD) (HF=5e-29)
Module size 6 genes
NF 0.65
%ile 87.2

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.EvAGI codeArabidopsis gene name O.I. H.G. S.X. Other DB
0.4863.20.96Contig416_x_atContig416--5e-29At4g24190SHD (SHEPHERD)O.I.H.G.S.X.
0.7388.70.96Contig16423_atContig16423--2e+0At3g02580STE1 (STEROL 1)O.I.H.G.S.X.
0.7187.10.96Contig3332_atContig3332--2e-1At3g21215RNA-binding protein, putativeO.I.H.G.S.X.
0.6784.70.96Contig6860_atContig6860--8e-4At5g66815unknown proteinO.I.H.G.S.X.
0.5975.80.96rbaak4i15_s_atrbaak4i15--2e-6At5g08680ATP synthase beta chain, mitochondrial, putativeO.I.H.G.S.X.
0.5572.00.96HA06i14r_s_atHA06i14r--8e-4At5g15650RGP2 (REVERSIBLY GLYCOSYLATED POLYPEPTIDE 2)O.I.H.G.S.X.

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Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
7.298.5GSM282031Malting_day1_Harrington_rep1GSE11200Expression data from malting barley seedsLink to GEO
5.397.4GSM382232Root_Hg1GSE15295Mercury toxicity in barley rootsLink to GEO
5.297.4GSM382234Root_Hg3GSE15295Mercury toxicity in barley rootsLink to GEO
5.197.3GSM238430Embryo 25DAF; Seed development; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
4.897.0GSM238431Embryo 25DAF; Seed development; Rep 2GSE9365Expression data from barley maturing and germinating grainsLink to GEO
4.796.9GSM382233Root_Hg2GSE15295Mercury toxicity in barley rootsLink to GEO
4.696.8GSM382237Root_Control3GSE15295Mercury toxicity in barley rootsLink to GEO
4.296.3GSM238432Embryo 0 h; Seed germination; Rep 1GSE9365Expression data from barley maturing and germinating grainsLink to GEO
3.995.8GSM382236Root_Control2GSE15295Mercury toxicity in barley rootsLink to GEO
3.895.7GSM382235Root_Control1GSE15295Mercury toxicity in barley rootsLink to GEO

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At4g24190, orthologous to the query gene, Contig416_x_at

VF%ileGene IDRepr. IDGene NameFunc.O.I.H.G.S.X.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.O.I.H.G.S.X.
0.8994.6At5g61790836301calnexin 1 (CNX1)F:unfolded protein binding, calcium ion binding;P:protein folding;C:in 8 components;MOPFBVAO.I.H.G.S.X.
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;MOFPBVAO.I.H.G.S.X.
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.O.I.H.G.S.X.
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.O.I.H.G.S.X.

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



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