CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g22160

Gene name VQ motif-containing protein

Module size 29 genes

NF 0.47

%ile 66.9

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
0.61 76.7 1.00 At3g22160 821780 VQ motif-containing protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;POMFBV O.I. H.G. S.X.
0.61 76.7 0.82 At3g09830 820141 protein kinase, putative F:protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA O.I. H.G. S.X.
0.61 76.7 0.80 At1g01560 839523 ATMPK11 member of MAP Kinase O.I. H.G. S.X.
0.60 75.7 0.83 At2g05940 815147 protein kinase, putative F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA O.I. H.G. S.X.
0.59 74.7 0.82 At4g34390 829589 XLG2 (extra-large GTP-binding protein 2) F:guanyl nucleotide binding, signal transducer activity;P:in 7 processes;C:nucleus;MFPOB O.I. H.G. S.X.
0.56 73.0 0.78 At5g35735 833550 auxin-responsive family protein F:unknown;P:unknown;C:plasma membrane, membrane;PMFOB O.I. H.G. S.X.
0.55 70.6 0.80 At4g34150 829563 C2 domain-containing protein F:unknown;P:response to cold;C:unknown;MPFOBVA O.I. H.G. S.X.
0.55 70.6 0.79 At2g15390 816031 FUT4 Predicted fucosyltransferase, based on similarity to FUT1, but not functionally redundant with FUT1. O.I. H.G. S.X.
0.55 70.6 0.83 At1g07000 837210 ATEXO70B2 (exocyst subunit EXO70 family protein B2) A member of EXO70 gene family, putative exocyst subunits, conserved in land plants. Arabidopsis thaliana contains 23 putative EXO70 genes, which can be classified into eight clusters on the phylogenetic tree. O.I. H.G. S.X.
0.54 69.5 0.80 At3g11840 820357 PUB24 (PLANT U-BOX 24) Encodes a U-box-domain-containing E3 ubiquitin ligase that acts as a negative regulator of PAMP-triggered immunity. O.I. H.G. S.X.
0.53 68.6 0.81 At4g12720 826884 NUDT7 Encodes a protein with ADP-ribose hydrolase activity. Negatively regulates EDS1-conditioned plant defense and programmed cell death. O.I. H.G. S.X.
0.52 67.4 0.82 At1g42990 840897 ATBZIP60 (BASIC REGION/LEUCINE ZIPPER MOTIF 60) AtbZIP60 consists of a bZIP DNA binding domain followed by a putative transmembrane domain. GFP fusions containing the first 260 amino acids (AtbZIP60deltaC) are nuclear-localized. AtbZIP60 is upregulated by the addition of tunicamycin (ER stress response inductor), DTT (inhibitor of disulfide bond formation) and azetin-2-carboxylate (proline analog perturbing protein structure). Upon ER stress the protein is proteolyzed and the soluble part is translocalized into the nucleus. AtbZIP60deltaC can activate the promoters of the ER chaperones BiP1, BiP2 and BiP3 and CNX1 and CNX2 via binding to the ER stress response element (ERSE) and the plant unfolded protein response element(P-UPRE). It can also activate its own transcription. O.I. H.G. S.X.
0.51 66.3 0.82 At2g30250 817575 WRKY25 member of WRKY Transcription Factor; Group I. Located in nucleus. Involved in response to various abiotic stresses - especially salt stress. O.I. H.G. S.X.
0.49 63.5 0.83 At4g33050 829442 EDA39 (embryo sac development arrest 39) F:calmodulin binding;P:polar nucleus fusion, response to chitin;C:cellular_component unknown;PFO O.I. H.G. S.X.
0.48 62.5 0.81 At5g06320 830520 NHL3 encodes a protein whose sequence is similar to tobacco hairpin-induced gene (HIN1) and Arabidopsis non-race specific disease resistance gene (NDR1). Expression of this gene is induced by cucumber mosaic virus, spermine and Pseudomonas syringae pv. tomato DC3000. The gene product is localized to the plasma membrane. O.I. H.G. S.X.
0.47 61.2 0.79 At4g14365 827080 zinc finger (C3HC4-type RING finger) family protein / ankyrin repeat family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MOBFPVA O.I. H.G. S.X.
0.46 59.8 0.79 At1g07135 837224 glycine-rich protein F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;BMPOFVA O.I. H.G. S.X.
0.45 58.3 0.82 At1g29690 839846 CAD1 (constitutively activated cell death 1) Encodes a protein containing a domain with significant homology to the MACPF (membrane attack complex and perforin) domain of complements and perforin proteins that are involved in innate immunity in animals. Transgenic cad1-1 mutant plants show lesions seen in the hypersensitive response, as well as a spontaneous activation of expression of pathogenesis-related genes and leading to a 32-fold increase in salicylic acid (SA). CAD1 is postulated to act as a negative regulator controlling SA-mediated pathway of programmed cell death in plant immunity. O.I. H.G. S.X.
0.44 57.2 0.83 At5g13190 831158 - F:unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. H.G. S.X.
0.43 55.3 0.82 At1g28380 839735 NSL1 (necrotic spotted lesions 1) This gene is predicted to encode a protein involved in negatively regulating salicylic acid-related defense responses and cell death programs. nsl1 mutants develop necrotic lesions spontaneously and show other features of a defense response, such as higher levels of SA and disease resistance-related transcripts, in the absence of a biotic stimulus. The NSL1 protein is predicted to have a MACPF domain, found in proteins that form a transmembrane pore in mammalian immune responses. NSL1 transcript levels do not appear to change in response to biotic stresses, but are elevated by cycloheximide in seedlings, and by sodium chloride in roots. O.I. H.G. S.X.
0.43 55.3 0.81 At3g45640 823706 ATMPK3 (ARABIDOPSIS THALIANA MITOGEN-ACTIVATED PROTEIN KINASE 3) Encodes a mitogen-activated kinase whose mRNA levels increase in response to touch, cold, salinity stress and chitin oligomers.Also functions in ovule development. Heterozygous MPK3 mutants in a homozygous MPK6 background are female sterile due to defects in integument development. MPK3 can be dephosphorylated by MKP2 in vitro. O.I. H.G. S.X.
0.40 50.8 0.78 At4g17230 827435 SCL13 (Scarecrow-like 13) Encodes a scarecrow-like protein (SCL13). Member of GRAS gene family. O.I. H.G. S.X.
0.39 48.4 0.79 At5g47070 834753 protein kinase, putative F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA O.I. H.G. S.X.
0.39 48.4 0.83 At3g53810 824548 lectin protein kinase, putative F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA O.I. H.G. S.X.
0.37 45.0 0.82 At3g11820 820355 SYP121 (SYNTAXIN OF PLANTS 121) Encodes a syntaxin localized at the plasma membrane (SYR1, Syntaxin Related Protein 1, also known as SYP121, PENETRATION1/PEN1). SYR1/PEN1 is a member of the SNARE superfamily proteins. SNARE proteins are involved in cell signaling, vesicle traffic, growth and development. SYR1/PEN1 functions in positioning anchoring of the KAT1 K+ channel protein at the plasma membrane. Transcription is upregulated by abscisic acid, suggesting a role in ABA signaling. Also functions in non-host resistance against barley powdery mildew, Blumeria graminis sp. hordei. SYR1/PEN1 is a nonessential component of the preinvasive resistance against Colletotrichum fungus. Required for mlo resistance. O.I. H.G. S.X.
0.35 41.6 0.80 At4g18880 827622 AT-HSFA4A member of Heat Stress Transcription Factor (Hsf) family O.I. H.G. S.X.
0.34 39.8 0.78 At5g26030 832672 FC1 (ferrochelatase 1) encodes ferrochelatase I located in plastids. Involved in heme biosynthesis in non-photosynthetic tissues and induced by oxidative stress in photosynthetic tissues to supply heme for defensive hemoproteins O.I. H.G. S.X.
0.33 38.1 0.81 At1g14370 837999 APK2A (PROTEIN KINASE 2A) Encodes protein kinase APK2a. O.I. H.G. S.X.
0.32 35.7 0.80 At3g16720 820924 ATL2 RING-H2 protein induced after exposure to chitin or inactivated crude cellulase preparations. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.61	76.7	1.00	At3g22160	821780	VQ motif-containing protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;POMFBV	O.I.	H.G.	S.X.
0.61	76.7	0.82	At3g09830	820141	protein kinase, putative	F:protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA	O.I.	H.G.	S.X.
0.61	76.7	0.80	At1g01560	839523	ATMPK11	member of MAP Kinase	O.I.	H.G.	S.X.
0.60	75.7	0.83	At2g05940	815147	protein kinase, putative	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA	O.I.	H.G.	S.X.
0.59	74.7	0.82	At4g34390	829589	XLG2 (extra-large GTP-binding protein 2)	F:guanyl nucleotide binding, signal transducer activity;P:in 7 processes;C:nucleus;MFPOB	O.I.	H.G.	S.X.
0.56	73.0	0.78	At5g35735	833550	auxin-responsive family protein	F:unknown;P:unknown;C:plasma membrane, membrane;PMFOB	O.I.	H.G.	S.X.
0.55	70.6	0.80	At4g34150	829563	C2 domain-containing protein	F:unknown;P:response to cold;C:unknown;MPFOBVA	O.I.	H.G.	S.X.
0.55	70.6	0.79	At2g15390	816031	FUT4	Predicted fucosyltransferase, based on similarity to FUT1, but not functionally redundant with FUT1.	O.I.	H.G.	S.X.
0.55	70.6	0.83	At1g07000	837210	ATEXO70B2 (exocyst subunit EXO70 family protein B2)	A member of EXO70 gene family, putative exocyst subunits, conserved in land plants. Arabidopsis thaliana contains 23 putative EXO70 genes, which can be classified into eight clusters on the phylogenetic tree.	O.I.	H.G.	S.X.
0.54	69.5	0.80	At3g11840	820357	PUB24 (PLANT U-BOX 24)	Encodes a U-box-domain-containing E3 ubiquitin ligase that acts as a negative regulator of PAMP-triggered immunity.	O.I.	H.G.	S.X.
0.53	68.6	0.81	At4g12720	826884	NUDT7	Encodes a protein with ADP-ribose hydrolase activity. Negatively regulates EDS1-conditioned plant defense and programmed cell death.	O.I.	H.G.	S.X.
0.52	67.4	0.82	At1g42990	840897	ATBZIP60 (BASIC REGION/LEUCINE ZIPPER MOTIF 60)	AtbZIP60 consists of a bZIP DNA binding domain followed by a putative transmembrane domain. GFP fusions containing the first 260 amino acids (AtbZIP60deltaC) are nuclear-localized. AtbZIP60 is upregulated by the addition of tunicamycin (ER stress response inductor), DTT (inhibitor of disulfide bond formation) and azetin-2-carboxylate (proline analog perturbing protein structure). Upon ER stress the protein is proteolyzed and the soluble part is translocalized into the nucleus. AtbZIP60deltaC can activate the promoters of the ER chaperones BiP1, BiP2 and BiP3 and CNX1 and CNX2 via binding to the ER stress response element (ERSE) and the plant unfolded protein response element(P-UPRE). It can also activate its own transcription.	O.I.	H.G.	S.X.
0.51	66.3	0.82	At2g30250	817575	WRKY25	member of WRKY Transcription Factor; Group I. Located in nucleus. Involved in response to various abiotic stresses - especially salt stress.	O.I.	H.G.	S.X.
0.49	63.5	0.83	At4g33050	829442	EDA39 (embryo sac development arrest 39)	F:calmodulin binding;P:polar nucleus fusion, response to chitin;C:cellular_component unknown;PFO	O.I.	H.G.	S.X.
0.48	62.5	0.81	At5g06320	830520	NHL3	encodes a protein whose sequence is similar to tobacco hairpin-induced gene (HIN1) and Arabidopsis non-race specific disease resistance gene (NDR1). Expression of this gene is induced by cucumber mosaic virus, spermine and Pseudomonas syringae pv. tomato DC3000. The gene product is localized to the plasma membrane.	O.I.	H.G.	S.X.
0.47	61.2	0.79	At4g14365	827080	zinc finger (C3HC4-type RING finger) family protein / ankyrin repeat family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MOBFPVA	O.I.	H.G.	S.X.
0.46	59.8	0.79	At1g07135	837224	glycine-rich protein	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;BMPOFVA	O.I.	H.G.	S.X.
0.45	58.3	0.82	At1g29690	839846	CAD1 (constitutively activated cell death 1)	Encodes a protein containing a domain with significant homology to the MACPF (membrane attack complex and perforin) domain of complements and perforin proteins that are involved in innate immunity in animals. Transgenic cad1-1 mutant plants show lesions seen in the hypersensitive response, as well as a spontaneous activation of expression of pathogenesis-related genes and leading to a 32-fold increase in salicylic acid (SA). CAD1 is postulated to act as a negative regulator controlling SA-mediated pathway of programmed cell death in plant immunity.	O.I.	H.G.	S.X.
0.44	57.2	0.83	At5g13190	831158	-	F:unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	H.G.	S.X.
0.43	55.3	0.82	At1g28380	839735	NSL1 (necrotic spotted lesions 1)	This gene is predicted to encode a protein involved in negatively regulating salicylic acid-related defense responses and cell death programs. nsl1 mutants develop necrotic lesions spontaneously and show other features of a defense response, such as higher levels of SA and disease resistance-related transcripts, in the absence of a biotic stimulus. The NSL1 protein is predicted to have a MACPF domain, found in proteins that form a transmembrane pore in mammalian immune responses. NSL1 transcript levels do not appear to change in response to biotic stresses, but are elevated by cycloheximide in seedlings, and by sodium chloride in roots.	O.I.	H.G.	S.X.
0.43	55.3	0.81	At3g45640	823706	ATMPK3 (ARABIDOPSIS THALIANA MITOGEN-ACTIVATED PROTEIN KINASE 3)	Encodes a mitogen-activated kinase whose mRNA levels increase in response to touch, cold, salinity stress and chitin oligomers.Also functions in ovule development. Heterozygous MPK3 mutants in a homozygous MPK6 background are female sterile due to defects in integument development. MPK3 can be dephosphorylated by MKP2 in vitro.	O.I.	H.G.	S.X.
0.40	50.8	0.78	At4g17230	827435	SCL13 (Scarecrow-like 13)	Encodes a scarecrow-like protein (SCL13). Member of GRAS gene family.	O.I.	H.G.	S.X.
0.39	48.4	0.79	At5g47070	834753	protein kinase, putative	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:plasma membrane;MPOBFVA	O.I.	H.G.	S.X.
0.39	48.4	0.83	At3g53810	824548	lectin protein kinase, putative	F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA	O.I.	H.G.	S.X.
0.37	45.0	0.82	At3g11820	820355	SYP121 (SYNTAXIN OF PLANTS 121)	Encodes a syntaxin localized at the plasma membrane (SYR1, Syntaxin Related Protein 1, also known as SYP121, PENETRATION1/PEN1). SYR1/PEN1 is a member of the SNARE superfamily proteins. SNARE proteins are involved in cell signaling, vesicle traffic, growth and development. SYR1/PEN1 functions in positioning anchoring of the KAT1 K+ channel protein at the plasma membrane. Transcription is upregulated by abscisic acid, suggesting a role in ABA signaling. Also functions in non-host resistance against barley powdery mildew, Blumeria graminis sp. hordei. SYR1/PEN1 is a nonessential component of the preinvasive resistance against Colletotrichum fungus. Required for mlo resistance.	O.I.	H.G.	S.X.
0.35	41.6	0.80	At4g18880	827622	AT-HSFA4A	member of Heat Stress Transcription Factor (Hsf) family	O.I.	H.G.	S.X.
0.34	39.8	0.78	At5g26030	832672	FC1 (ferrochelatase 1)	encodes ferrochelatase I located in plastids. Involved in heme biosynthesis in non-photosynthetic tissues and induced by oxidative stress in photosynthetic tissues to supply heme for defensive hemoproteins	O.I.	H.G.	S.X.
0.33	38.1	0.81	At1g14370	837999	APK2A (PROTEIN KINASE 2A)	Encodes protein kinase APK2a.	O.I.	H.G.	S.X.
0.32	35.7	0.80	At3g16720	820924	ATL2	RING-H2 protein induced after exposure to chitin or inactivated crude cellulase preparations.	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
61.3 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.9 99.8 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
51.7 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.2 99.8 GSM311292 Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
51.1 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.3 99.8 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
46.3 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.0 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.9 99.8 GSM311291 Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
45.9 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.9 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.7 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.4 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.3 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.9 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.4 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.4 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.3 99.8 GSM133757 Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
38.9 99.8 GSM143308 Tsu_genomic_hyb_3 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 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.3 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.5 99.7 GSM311280 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
32.1 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.4 99.7 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
29.4 99.7 GSM284392 Arabidopsis GCE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
25.5 99.7 GSM284393 Arabidopsis GCE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
21.5 99.6 GSM311279 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
21.3 99.6 GSM284394 Arabidopsis GCE3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
18.5 99.5 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.5 99.5 GSM311296 Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
12.5 99.3 E-MEXP-807-raw-cel-1173273144
12.0 99.3 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.9 99.3 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.9 99.3 E-MEXP-807-raw-cel-1173273252
11.4 99.3 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.7 99.2 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.2 99.2 E-MEXP-546-raw-cel-863289424
9.3 99.1 E-MEXP-98-raw-cel-320188804
8.9 99.0 GSM128662 Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.7 99.0 GSM128661 Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
61.3	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.9	99.8	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
51.7	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.2	99.8	GSM311292	Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
51.1	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.3	99.8	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
46.3	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.0	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.9	99.8	GSM311291	Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
45.9	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.9	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.7	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.4	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.3	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.9	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.4	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.4	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.3	99.8	GSM133757	Lindsey_1-8_heart-stage-cotyledon_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
38.9	99.8	GSM143308	Tsu_genomic_hyb_3	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	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.3	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.5	99.7	GSM311280	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
32.1	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.4	99.7	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
29.4	99.7	GSM284392	Arabidopsis GCE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
25.5	99.7	GSM284393	Arabidopsis GCE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
21.5	99.6	GSM311279	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
21.3	99.6	GSM284394	Arabidopsis GCE3	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
18.5	99.5	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.5	99.5	GSM311296	Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
12.5	99.3	E-MEXP-807-raw-cel-1173273144
12.0	99.3	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.9	99.3	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.9	99.3	E-MEXP-807-raw-cel-1173273252
11.4	99.3	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.7	99.2	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.2	99.2	E-MEXP-546-raw-cel-863289424
9.3	99.1	E-MEXP-98-raw-cel-320188804
8.9	99.0	GSM128662	Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.7	99.0	GSM128661	Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.090 7 GO:0010200 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 chitin stimulus.
0.067 1 GO:0000169 Any process that initiates the activity of the inactive enzyme MAP kinase activity during osmolarity sensing.
0.067 1 GO:0070212 The transfer of multiple ADP-ribose residues from NAD to a protein amino acid, forming a poly(ADP-ribose) chain.

SF	Genes	GO ID	Process Name
0.090	7	GO:0010200	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 chitin stimulus.
0.067	1	GO:0000169	Any process that initiates the activity of the inactive enzyme MAP kinase activity during osmolarity sensing.
0.067	1	GO:0070212	The transfer of multiple ADP-ribose residues from NAD to a protein amino acid, forming a poly(ADP-ribose) chain.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.089 2 04650 Natural killer cell mediated cytotoxicity
0.036 1 00860 Porphyrin and chlorophyll metabolism
0.026 1 04130 SNARE interactions in vesicular transport

SF	Genes	KEGG ID	Pathway name
0.089	2	04650	Natural killer cell mediated cytotoxicity
0.036	1	00860	Porphyrin and chlorophyll metabolism
0.026	1	04130	SNARE interactions in vesicular transport

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

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Gene ID	At3g22160
Gene name	VQ motif-containing protein
Module size	29 genes
NF	0.47
%ile	66.9

Co-expression analysis

Gene ID At3g22160 Gene name VQ motif-containing protein Module size 29 genes NF 0.47 %ile 66.9

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 KEGG0.089204650Natural killer cell mediated cytotoxicity0.036100860Porphyrin and chlorophyll metabolism0.026104130SNARE interactions in vesicular transport

Inter-species module comparison

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

Gene ID At3g22160

Gene name VQ motif-containing protein

Module size 29 genes

NF 0.47

%ile 66.9

: 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
0.089 2 04650 Natural killer cell mediated cytotoxicity
0.036 1 00860 Porphyrin and chlorophyll metabolism
0.026 1 04130 SNARE interactions in vesicular transport

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