CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g51640

Gene name YLS7

Module size 53 genes

NF 0.22

%ile 22.1

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

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. O.I. H.G. S.X. Other DB
1.00 100.0 1.00 At5g51640 835238 YLS7 Encodes leaf-senescence-related protein. O.I. H.G. S.X.
0.42 53.9 0.90 At2g17760 816285 aspartyl protease family protein F:aspartic-type endopeptidase activity;P:proteolysis;C:anchored to membrane;PFMO O.I. H.G. S.X.
0.40 50.8 0.90 At5g64370 836558 BETA-UP (beta-ureidopropionase) PYD3 encodes a beta-ureidopropionase which, when expressed in E. coli, has been shown to convert beta-ureidopropionate into beta-alanine. O.I. H.G. S.X.
0.39 48.4 0.88 At2g13650 815850 GONST1 (Golgi Nucleotide Sugar Transporter 1) GDP-mannose transporter O.I. H.G. S.X.
0.38 46.7 0.89 At4g23850 828484 long-chain-fatty-acid--CoA ligase / long-chain acyl-CoA synthetase F:catalytic activity;P:fatty acid biosynthetic process;C:plasma membrane;BOMFPAV O.I. H.G. S.X.
0.37 45.0 0.89 At2g20010 816520 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.37 45.0 0.88 At1g21380 838737 VHS domain-containing protein / GAT domain-containing protein F:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, intracellular;MFPOB O.I. H.G. S.X.
0.36 43.6 0.89 At1g14000 837960 VIK (VH1-INTERACTING KINASE) Encodes a protein with similarity to members of the C1 subgroup of MAP kinase kinase kinases. Interacts physically with the receptor kinase BRL2/VH1 and appears to be involved in auxin and brassinosteriod signaling. O.I. H.G. S.X.
0.36 43.6 0.89 At4g33430 829480 BAK1 (BRI1-ASSOCIATED RECEPTOR KINASE) Leu-rich receptor Serine/threonine protein kinase. Component of BR signaling that interacts with BRI1 in vitro and in vivo to form a heterodimer. Brassinolide-dependent association of BRI1 and BAK1 in vivo. Phosphorylation of both BRI1 and BAK1 on Thr residues was BR dependent. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome. O.I. H.G. S.X.
0.35 41.6 0.88 At4g24400 828542 CIPK8 (CBL-INTERACTING PROTEIN KINASE 8) Encodes a CBL (calcineurin B-like calcium sensor proteins) -interacting serine/threonine protein kinase. O.I. H.G. S.X.
0.35 41.6 0.88 At1g28280 839722 VQ motif-containing protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PMFOB O.I. H.G. S.X.
0.30 32.1 0.90 At1g30000 839879 glycoside hydrolase family 47 protein F:mannosyl-oligosaccharide 1,2-alpha-mannosidase activity, alpha-mannosidase activity, calcium ion binding;P:protein amino acid N-linked glycosylation;C:Golgi apparatus;MFOPB O.I. H.G. S.X.
0.29 30.3 0.89 At1g21370 838736 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPO O.I. H.G. S.X.
0.28 30.3 0.89 At3g26090 822207 RGS1 (REGULATOR OF G-PROTEIN SIGNALING 1) Encodes ArRGS1, a putative membrane receptor for D-glucose. Also functions as a regulator of G-protein signaling. Has GTPase-accelerating activity. Regulates the activity of AtGPA1. Lines over-expressing the gene are more tolerant to dehydration and root elongation. These phenotypes are dependent on ABA. O.I. H.G. S.X.
0.28 30.3 0.90 At5g47200 834766 ATRAB1A F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVA O.I. H.G. S.X.
0.27 26.2 0.89 At5g63880 836508 VPS20.1 F:unknown;P:vesicle-mediated transport, N-terminal protein myristoylation;C:ESCRT III complex, plasma membrane;MOFPBAV O.I. H.G. S.X.
0.27 26.2 0.88 At2g26230 817163 uricase / urate oxidase / nodulin 35, putative F:urate oxidase activity;P:purine base metabolic process;C:peroxisome;BFMPOA O.I. H.G. S.X.
0.27 26.2 0.89 At1g32790 840173 RNA-binding protein, putative RNA-binding protein, putative, similar to RNA-binding protein GB:CAB40027 GI:4539439 from (Arabidopsis thaliana).Member of a family of PAB2 binding domain proteins. O.I. H.G. S.X.
0.26 24.4 0.89 At1g07630 837276 PLL5 Encodes a protein phosphatase 2C like gene, similar to POL. Involved in leaf development. Knockout mutants have abnormally shaped leaves. O.I. H.G. S.X.
0.26 24.4 0.89 At2g21520 816691 transporter F:transporter activity;P:transport;C:intracellular;MPFO O.I. H.G. S.X.
0.26 24.4 0.90 At4g05160 825864 4-coumarate--CoA ligase, putative / 4-coumaroyl-CoA synthase, putative Encodes a peroxisomal protein involved in the activation of fatty acids through esterification with CoA. At4g05160 preferentially activates fatty acids with medium chain length (C6:0 and C7:0) as well as even-numbered long-chain fatty acids (C14:0, C16:0 and C18:0). At4g05160 was also able to catalyze the conversion of OPC-6:0 to its CoA ester and is therefore thought to be involved in the peroxisomal β-oxidation steps of jasmonic acid biosynthesis. O.I. H.G. S.X.
0.26 24.4 0.89 At5g44240 834447 haloacid dehalogenase-like hydrolase family protein F:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;P:metabolic process, phospholipid transport, ATP biosynthetic process;C:integral to membrane, membrane;MBOFPAV O.I. H.G. S.X.
0.24 20.7 0.88 At2g37110 818287 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMO O.I. H.G. S.X.
0.24 20.7 0.90 At5g03290 831884 isocitrate dehydrogenase, putative / NAD+ isocitrate dehydrogenase, putative F:isocitrate dehydrogenase (NAD+) activity, ATP binding;P:tricarboxylic acid cycle, metabolic process;C:mitochondrion, chloroplast;BOMFAP O.I. H.G. S.X.
0.24 20.7 0.89 At1g69960 843333 PP2A (SERINE/THREONINE PROTEIN PHOSPHATASE 2A) type 2A serine/threonine protein phosphatase (PP2A) mRNA, O.I. H.G. S.X.
0.23 19.3 0.89 At1g32130 840105 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA O.I. H.G. S.X.
0.23 19.3 0.89 At1g25280 839112 AtTLP10 (TUBBY LIKE PROTEIN 10) Member of TLP family O.I. H.G. S.X.
0.22 17.5 0.89 At1g04970 839357 lipid-binding serum glycoprotein family protein F:lipid binding;P:biological_process unknown;C:plasma membrane, vacuole;MPO O.I. H.G. S.X.
0.21 15.8 0.90 At5g59420 836061 ORP3C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3C) F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOP O.I. H.G. S.X.
0.20 14.4 0.90 At3g59950 825165 autophagy 4b (APG4b) F:peptidase activity;P:autophagy;C:chloroplast;MOFP O.I. H.G. S.X.
0.19 12.7 0.88 At3g51580 824321 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MBPOFV O.I. H.G. S.X.
0.19 12.7 0.89 At3g23540 821933 - F:unknown;P:unknown;C:cellular_component unknown;OBMFPA O.I. H.G. S.X.
0.19 12.7 0.89 At5g46630 834706 clathrin adaptor complexes medium subunit family protein clathrin adaptor complexes medium subunit family protein, contains Pfam profile: PF00928 adaptor complexes medium subunit family; similar to micro-adaptins of clathrin coated vesicle adaptor complexes O.I. H.G. S.X.
0.18 11.4 0.89 At4g25360 828639 - F:unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.18 11.4 0.88 At3g19950 821533 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVB O.I. H.G. S.X.
0.17 10.2 0.89 At4g15940 827276 fumarylacetoacetate hydrolase family protein F:catalytic activity;P:metabolic process;C:mitochondrion;BOFMAP O.I. H.G. S.X.
0.17 10.2 0.89 At3g52570 824423 ATP binding F:ATP binding;P:unknown;C:mitochondrion;BOMFPA O.I. H.G. S.X.
0.17 10.2 0.89 At5g45900 834630 APG7 (AUTOPHAGY 7) Component of autophagy conjugation pathway. Required for proper senescence. O.I. H.G. S.X.
0.16 8.8 0.88 At1g71190 843459 SAG18 (SENESCENCE ASSOCIATED GENE 18) Senescence associated gene (SAG). Expression induced by ozone. Encodes a plant-specific protein of unknown function. Based on a personal communication from David Meinke (08/21/2007), this gene is not allelic to TTN4, even though this has been stated previously in a publication. O.I. H.G. S.X.
0.16 8.8 0.88 At4g15470 827218 - F:unknown;P:unknown;C:unknown;BOMPFV O.I. H.G. S.X.
0.16 8.8 0.88 At5g43560 834376 meprin and TRAF homology domain-containing protein / MATH domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.16 8.8 0.88 At4g17270 827441 Mo25 family protein F:binding;P:biological_process unknown;C:plasma membrane;MFPO O.I. H.G. S.X.
0.15 7.8 0.89 At3g09840 820142 CDC48 (CELL DIVISION CYCLE 48) Encodes a cell division cycle protein, a member of AAA-type ATPases gene family. Expressed throughout the plant in regions of cell division. Within the cell, sub-cellular localization varies depending on the stage of the cell cycle.Mutants in which the expression of CDC48A is altered show defects in cytokinesis, cell expansion and cell differentiation. O.I. H.G. S.X.
0.14 6.8 0.89 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. O.I. H.G. S.X.
0.14 6.8 0.89 At1g32230 840115 RCD1 (RADICAL-INDUCED CELL DEATH1) Encodes a protein belonging to the (ADP-ribosyl)transferase domain-containing subfamily of WWE protein-protein interaction domain protein family. Superoxide radicals are necessary and sufficient to propagate cell death or lesion formation in rcd1 mutants. Without stress treatment, RCD1 is localized in the nucleus. Under high salt or oxidative stress, RCD1 is found not only in the nucleus but also in the cytoplasm. O.I. H.G. S.X.
0.13 5.8 0.88 At3g63150 825490 MIRO2 (MIRO-RELATED GTP-ASE 2) Encodes a calcium binding GTPases that is localized to the mitochondrion and is involved in salt stress response. O.I. H.G. S.X.
0.13 5.8 0.88 At3g26400 822244 EIF4B1 member of eIF4B - eukaryotic initiation factor 4B O.I. H.G. S.X.
0.13 5.8 0.89 At1g20575 838646 dolichyl-phosphate beta-D-mannosyltransferase, putative / dolichol-phosphate mannosyltransferase, putative / mannose-P-dolichol synthase, putative F:elongation factor-2 kinase activity, dolichyl-phosphate beta-D-mannosyltransferase activity;P:protein amino acid glycosylation;C:endoplasmic reticulum;BOAMFPV O.I. H.G. S.X.
0.11 4.1 0.88 At1g67960 843124 - F:unknown;P:unknown;C:unknown;FMOP O.I. H.G. S.X.
0.11 4.1 0.88 At2g45140 819122 PVA12 (PLANT VAP HOMOLOG 12) Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent. O.I. H.G. S.X.
0.11 4.1 0.89 At1g59610 842251 ADL3 (ARABIDOPSIS DYNAMIN-LIKE 3) A high molecular weight GTPase whose GTP-binding domain shows a low homology to those of other plant dynamin-like proteins.Contains a pleckstrin homologous domain. O.I. H.G. S.X.
0.11 4.1 0.88 At5g38830 833874 tRNA synthetase class I (C) family protein F:cysteine-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, cysteinyl-tRNA aminoacylation;C:cytoplasm;OBMFAPV O.I. H.G. S.X.
0.09 2.8 0.89 At5g49950 835059 embryogenesis-associated protein-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOMFP O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
1.00	100.0	1.00	At5g51640	835238	YLS7	Encodes leaf-senescence-related protein.	O.I.	H.G.	S.X.
0.42	53.9	0.90	At2g17760	816285	aspartyl protease family protein	F:aspartic-type endopeptidase activity;P:proteolysis;C:anchored to membrane;PFMO	O.I.	H.G.	S.X.
0.40	50.8	0.90	At5g64370	836558	BETA-UP (beta-ureidopropionase)	PYD3 encodes a beta-ureidopropionase which, when expressed in E. coli, has been shown to convert beta-ureidopropionate into beta-alanine.	O.I.	H.G.	S.X.
0.39	48.4	0.88	At2g13650	815850	GONST1 (Golgi Nucleotide Sugar Transporter 1)	GDP-mannose transporter	O.I.	H.G.	S.X.
0.38	46.7	0.89	At4g23850	828484	long-chain-fatty-acid--CoA ligase / long-chain acyl-CoA synthetase	F:catalytic activity;P:fatty acid biosynthetic process;C:plasma membrane;BOMFPAV	O.I.	H.G.	S.X.
0.37	45.0	0.89	At2g20010	816520	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.37	45.0	0.88	At1g21380	838737	VHS domain-containing protein / GAT domain-containing protein	F:protein transporter activity;P:intracellular protein transport, intra-Golgi vesicle-mediated transport;C:Golgi stack, intracellular;MFPOB	O.I.	H.G.	S.X.
0.36	43.6	0.89	At1g14000	837960	VIK (VH1-INTERACTING KINASE)	Encodes a protein with similarity to members of the C1 subgroup of MAP kinase kinase kinases. Interacts physically with the receptor kinase BRL2/VH1 and appears to be involved in auxin and brassinosteriod signaling.	O.I.	H.G.	S.X.
0.36	43.6	0.89	At4g33430	829480	BAK1 (BRI1-ASSOCIATED RECEPTOR KINASE)	Leu-rich receptor Serine/threonine protein kinase. Component of BR signaling that interacts with BRI1 in vitro and in vivo to form a heterodimer. Brassinolide-dependent association of BRI1 and BAK1 in vivo. Phosphorylation of both BRI1 and BAK1 on Thr residues was BR dependent. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome.	O.I.	H.G.	S.X.
0.35	41.6	0.88	At4g24400	828542	CIPK8 (CBL-INTERACTING PROTEIN KINASE 8)	Encodes a CBL (calcineurin B-like calcium sensor proteins) -interacting serine/threonine protein kinase.	O.I.	H.G.	S.X.
0.35	41.6	0.88	At1g28280	839722	VQ motif-containing protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PMFOB	O.I.	H.G.	S.X.
0.30	32.1	0.90	At1g30000	839879	glycoside hydrolase family 47 protein	F:mannosyl-oligosaccharide 1,2-alpha-mannosidase activity, alpha-mannosidase activity, calcium ion binding;P:protein amino acid N-linked glycosylation;C:Golgi apparatus;MFOPB	O.I.	H.G.	S.X.
0.29	30.3	0.89	At1g21370	838736	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;FPO	O.I.	H.G.	S.X.
0.28	30.3	0.89	At3g26090	822207	RGS1 (REGULATOR OF G-PROTEIN SIGNALING 1)	Encodes ArRGS1, a putative membrane receptor for D-glucose. Also functions as a regulator of G-protein signaling. Has GTPase-accelerating activity. Regulates the activity of AtGPA1. Lines over-expressing the gene are more tolerant to dehydration and root elongation. These phenotypes are dependent on ABA.	O.I.	H.G.	S.X.
0.28	30.3	0.90	At5g47200	834766	ATRAB1A	F:GTP binding;P:protein transport, small GTPase mediated signal transduction;C:plasma membrane;MOFPBVA	O.I.	H.G.	S.X.
0.27	26.2	0.89	At5g63880	836508	VPS20.1	F:unknown;P:vesicle-mediated transport, N-terminal protein myristoylation;C:ESCRT III complex, plasma membrane;MOFPBAV	O.I.	H.G.	S.X.
0.27	26.2	0.88	At2g26230	817163	uricase / urate oxidase / nodulin 35, putative	F:urate oxidase activity;P:purine base metabolic process;C:peroxisome;BFMPOA	O.I.	H.G.	S.X.
0.27	26.2	0.89	At1g32790	840173	RNA-binding protein, putative	RNA-binding protein, putative, similar to RNA-binding protein GB:CAB40027 GI:4539439 from (Arabidopsis thaliana).Member of a family of PAB2 binding domain proteins.	O.I.	H.G.	S.X.
0.26	24.4	0.89	At1g07630	837276	PLL5	Encodes a protein phosphatase 2C like gene, similar to POL. Involved in leaf development. Knockout mutants have abnormally shaped leaves.	O.I.	H.G.	S.X.
0.26	24.4	0.89	At2g21520	816691	transporter	F:transporter activity;P:transport;C:intracellular;MPFO	O.I.	H.G.	S.X.
0.26	24.4	0.90	At4g05160	825864	4-coumarate--CoA ligase, putative / 4-coumaroyl-CoA synthase, putative	Encodes a peroxisomal protein involved in the activation of fatty acids through esterification with CoA. At4g05160 preferentially activates fatty acids with medium chain length (C6:0 and C7:0) as well as even-numbered long-chain fatty acids (C14:0, C16:0 and C18:0). At4g05160 was also able to catalyze the conversion of OPC-6:0 to its CoA ester and is therefore thought to be involved in the peroxisomal β-oxidation steps of jasmonic acid biosynthesis.	O.I.	H.G.	S.X.
0.26	24.4	0.89	At5g44240	834447	haloacid dehalogenase-like hydrolase family protein	F:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;P:metabolic process, phospholipid transport, ATP biosynthetic process;C:integral to membrane, membrane;MBOFPAV	O.I.	H.G.	S.X.
0.24	20.7	0.88	At2g37110	818287	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PFMO	O.I.	H.G.	S.X.
0.24	20.7	0.90	At5g03290	831884	isocitrate dehydrogenase, putative / NAD+ isocitrate dehydrogenase, putative	F:isocitrate dehydrogenase (NAD+) activity, ATP binding;P:tricarboxylic acid cycle, metabolic process;C:mitochondrion, chloroplast;BOMFAP	O.I.	H.G.	S.X.
0.24	20.7	0.89	At1g69960	843333	PP2A (SERINE/THREONINE PROTEIN PHOSPHATASE 2A)	type 2A serine/threonine protein phosphatase (PP2A) mRNA,	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g32130	840105	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFPBVA	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g25280	839112	AtTLP10 (TUBBY LIKE PROTEIN 10)	Member of TLP family	O.I.	H.G.	S.X.
0.22	17.5	0.89	At1g04970	839357	lipid-binding serum glycoprotein family protein	F:lipid binding;P:biological_process unknown;C:plasma membrane, vacuole;MPO	O.I.	H.G.	S.X.
0.21	15.8	0.90	At5g59420	836061	ORP3C (OSBP(OXYSTEROL BINDING PROTEIN)-RELATED PROTEIN 3C)	F:oxysterol binding;P:steroid metabolic process;C:cellular_component unknown;MFOP	O.I.	H.G.	S.X.
0.20	14.4	0.90	At3g59950	825165	autophagy 4b (APG4b)	F:peptidase activity;P:autophagy;C:chloroplast;MOFP	O.I.	H.G.	S.X.
0.19	12.7	0.88	At3g51580	824321	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;MBPOFV	O.I.	H.G.	S.X.
0.19	12.7	0.89	At3g23540	821933	-	F:unknown;P:unknown;C:cellular_component unknown;OBMFPA	O.I.	H.G.	S.X.
0.19	12.7	0.89	At5g46630	834706	clathrin adaptor complexes medium subunit family protein	clathrin adaptor complexes medium subunit family protein, contains Pfam profile: PF00928 adaptor complexes medium subunit family; similar to micro-adaptins of clathrin coated vesicle adaptor complexes	O.I.	H.G.	S.X.
0.18	11.4	0.89	At4g25360	828639	-	F:unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.18	11.4	0.88	At3g19950	821533	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFVB	O.I.	H.G.	S.X.
0.17	10.2	0.89	At4g15940	827276	fumarylacetoacetate hydrolase family protein	F:catalytic activity;P:metabolic process;C:mitochondrion;BOFMAP	O.I.	H.G.	S.X.
0.17	10.2	0.89	At3g52570	824423	ATP binding	F:ATP binding;P:unknown;C:mitochondrion;BOMFPA	O.I.	H.G.	S.X.
0.17	10.2	0.89	At5g45900	834630	APG7 (AUTOPHAGY 7)	Component of autophagy conjugation pathway. Required for proper senescence.	O.I.	H.G.	S.X.
0.16	8.8	0.88	At1g71190	843459	SAG18 (SENESCENCE ASSOCIATED GENE 18)	Senescence associated gene (SAG). Expression induced by ozone. Encodes a plant-specific protein of unknown function. Based on a personal communication from David Meinke (08/21/2007), this gene is not allelic to TTN4, even though this has been stated previously in a publication.	O.I.	H.G.	S.X.
0.16	8.8	0.88	At4g15470	827218	-	F:unknown;P:unknown;C:unknown;BOMPFV	O.I.	H.G.	S.X.
0.16	8.8	0.88	At5g43560	834376	meprin and TRAF homology domain-containing protein / MATH domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.16	8.8	0.88	At4g17270	827441	Mo25 family protein	F:binding;P:biological_process unknown;C:plasma membrane;MFPO	O.I.	H.G.	S.X.
0.15	7.8	0.89	At3g09840	820142	CDC48 (CELL DIVISION CYCLE 48)	Encodes a cell division cycle protein, a member of AAA-type ATPases gene family. Expressed throughout the plant in regions of cell division. Within the cell, sub-cellular localization varies depending on the stage of the cell cycle.Mutants in which the expression of CDC48A is altered show defects in cytokinesis, cell expansion and cell differentiation.	O.I.	H.G.	S.X.
0.14	6.8	0.89	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.	O.I.	H.G.	S.X.
0.14	6.8	0.89	At1g32230	840115	RCD1 (RADICAL-INDUCED CELL DEATH1)	Encodes a protein belonging to the (ADP-ribosyl)transferase domain-containing subfamily of WWE protein-protein interaction domain protein family. Superoxide radicals are necessary and sufficient to propagate cell death or lesion formation in rcd1 mutants. Without stress treatment, RCD1 is localized in the nucleus. Under high salt or oxidative stress, RCD1 is found not only in the nucleus but also in the cytoplasm.	O.I.	H.G.	S.X.
0.13	5.8	0.88	At3g63150	825490	MIRO2 (MIRO-RELATED GTP-ASE 2)	Encodes a calcium binding GTPases that is localized to the mitochondrion and is involved in salt stress response.	O.I.	H.G.	S.X.
0.13	5.8	0.88	At3g26400	822244	EIF4B1	member of eIF4B - eukaryotic initiation factor 4B	O.I.	H.G.	S.X.
0.13	5.8	0.89	At1g20575	838646	dolichyl-phosphate beta-D-mannosyltransferase, putative / dolichol-phosphate mannosyltransferase, putative / mannose-P-dolichol synthase, putative	F:elongation factor-2 kinase activity, dolichyl-phosphate beta-D-mannosyltransferase activity;P:protein amino acid glycosylation;C:endoplasmic reticulum;BOAMFPV	O.I.	H.G.	S.X.
0.11	4.1	0.88	At1g67960	843124	-	F:unknown;P:unknown;C:unknown;FMOP	O.I.	H.G.	S.X.
0.11	4.1	0.88	At2g45140	819122	PVA12 (PLANT VAP HOMOLOG 12)	Encodes a Plant VAMP-Associated protein that localizes to the ER and binds to the sitosterol-binding protein ORP3a. The WFDE motif in ORP3a appears to be important for this direct interaction. Mutation of this motif causes ORP3a to relocalize to the Golgi and cytosol. The interaction between PVA12 and ORP3a does not appear to be sterol-dependent.	O.I.	H.G.	S.X.
0.11	4.1	0.89	At1g59610	842251	ADL3 (ARABIDOPSIS DYNAMIN-LIKE 3)	A high molecular weight GTPase whose GTP-binding domain shows a low homology to those of other plant dynamin-like proteins.Contains a pleckstrin homologous domain.	O.I.	H.G.	S.X.
0.11	4.1	0.88	At5g38830	833874	tRNA synthetase class I (C) family protein	F:cysteine-tRNA ligase activity, nucleotide binding, ATP binding;P:response to cadmium ion, cysteinyl-tRNA aminoacylation;C:cytoplasm;OBMFAPV	O.I.	H.G.	S.X.
0.09	2.8	0.89	At5g49950	835059	embryogenesis-associated protein-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOMFP	O.I.	H.G.	S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
85.9 99.9 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
62.1 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.4 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.7 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.4 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
48.0 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
46.7 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
45.8 99.8 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
45.3 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.2 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
42.7 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.7 99.8 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
41.2 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.4 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.6 99.8 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
38.4 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.2 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.4 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.5 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.2 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
27.5 99.7 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
22.1 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.0 99.6 E-ATMX-35-raw-cel-1574334832
19.8 99.6 GSM133776 Lindsey_1-1_globular-apical_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.5 99.6 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
17.5 99.5 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
17.3 99.5 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.4 99.5 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.2 99.5 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.1 99.4 E-ATMX-35-raw-cel-1574334800
9.7 99.1 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.0 99.1 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
8.9 99.0 E-ATMX-35-raw-cel-1574334816
8.6 99.0 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
85.9	99.9	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
62.1	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.4	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.7	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.4	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
48.0	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8	99.8	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
46.7	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
45.8	99.8	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
45.3	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.2	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
42.7	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.7	99.8	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
41.2	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.4	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.6	99.8	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
38.4	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.2	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.4	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.5	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.2	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
27.5	99.7	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
22.1	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.0	99.6	E-ATMX-35-raw-cel-1574334832
19.8	99.6	GSM133776	Lindsey_1-1_globular-apical_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.5	99.6	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
17.5	99.5	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
17.3	99.5	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.4	99.5	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.2	99.5	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.1	99.4	E-ATMX-35-raw-cel-1574334800
9.7	99.1	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.0	99.1	GSM131636	ATGE_73_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.9	99.0	E-ATMX-35-raw-cel-1574334816
8.6	99.0	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.078 3 GO:0010150 The process that occurs in a leaf near the end of its active life that is associated with the dismantling of cell components and membranes, loss of functional chloroplasts, and an overall decline in metabolism.
0.066 2 GO:0010149 A preprogrammed process associated with the dismantling of an anatomical structure and an overall decline in metabolism. This may include the breakdown of organelles, membranes and other cellular components. An example of this process is found in Arabidopsis thaliana, when older leaves or floral organs are shed.
0.055 2 GO:0009749 A 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 glucose stimulus.

SF	Genes	GO ID	Process Name
0.078	3	GO:0010150	The process that occurs in a leaf near the end of its active life that is associated with the dismantling of cell components and membranes, loss of functional chloroplasts, and an overall decline in metabolism.
0.066	2	GO:0010149	A preprogrammed process associated with the dismantling of an anatomical structure and an overall decline in metabolism. This may include the breakdown of organelles, membranes and other cellular components. An example of this process is found in Arabidopsis thaliana, when older leaves or floral organs are shed.
0.055	2	GO:0009749	A 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 glucose stimulus.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.048 2 00510 N-Glycan biosynthesis
0.036 1 00232 Caffeine metabolism
0.034 2 04144 Endocytosis

SF	Genes	KEGG ID	Pathway name
0.048	2	00510	N-Glycan biosynthesis
0.036	1	00232	Caffeine metabolism
0.034	2	04144	Endocytosis

Inter-species module comparison

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

Back to the CoP portal site

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Gene ID	At5g51640
Gene name	YLS7
Module size	53 genes
NF	0.22
%ile	22.1

Co-expression analysis

Gene ID At5g51640 Gene name YLS7 Module size 53 genes NF 0.22 %ile 22.1

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.048200510N-Glycan biosynthesis0.036100232Caffeine metabolism0.034204144Endocytosis

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At5g51640

Gene name YLS7

Module size 53 genes

NF 0.22

%ile 22.1

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes KEGG ID Pathway name Link to KEGG
0.048 2 00510 N-Glycan biosynthesis
0.036 1 00232 Caffeine metabolism
0.034 2 04144 Endocytosis

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