CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g43520

Gene name ATTI2

Module size 41 genes

NF 0.58

%ile 79.6

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
0.67 81.6 1.00 At2g43520 818953 ATTI2 Encodes putative trypsin inhibitor protein which may function in defense against herbivory. Member of the defensin-like (DEFL) family. O.I. H.G. S.X.
0.80 89.8 0.63 At1g11170 837658 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB O.I. H.G. S.X.
0.78 88.6 0.59 At3g63040 825479 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.76 87.4 0.64 At1g68380 843167 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.75 86.9 0.53 At2g47120 819325 short-chain dehydrogenase/reductase (SDR) family protein F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAV O.I. H.G. S.X.
0.75 86.9 0.61 At5g49190 834978 SUS2 (SUCROSE SYNTHASE 2) Encodes a putative sucrose synthase (SUS2). The activity of the enzyme could not be assayed as proved to be insoluble (PMID 17257168). Induced specifically by O(2) deficiency. O.I. H.G. S.X.
0.74 86.1 0.58 At3g12203 820399 scpl17 (serine carboxypeptidase-like 17) F:serine-type carboxypeptidase activity;P:proteolysis;C:endomembrane system;PMFOB O.I. H.G. S.X.
0.74 86.1 0.59 At4g34520 829603 KCS18 Encodes KCS18, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids). O.I. H.G. S.X.
0.74 86.1 0.52 At5g51210 835196 OLEO3 (OLEOSIN3) Encodes oleosin3, a protein found in oil bodies, involved in seed lipid accumulation. O.I. H.G. S.X.
0.72 84.8 0.59 At5g09640 830823 SCPL19 encodes a serine carboxypeptidase-like (SCPL) protein. Mutants accumulate sinapoylglucose instead of sinapoylcholine, and have increased levels of choline and decreased activity of the enzyme sinapoylglucose:choline sinapoyltransferase. O.I. H.G. S.X.
0.72 84.8 0.55 At1g78500 844186 pentacyclic triterpene synthase, putative Encodes a protein with pentacyclic triterpene synthase activity. In addition to the compounds lupeol, α-amyrin and bauerenol, this enzyme was also shown to produce two seco-triterpenes: α- and β-seco-amyrin. O.I. H.G. S.X.
0.69 82.9 0.58 At4g36700 829823 cupin family protein F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;MOFBPVA O.I. H.G. S.X.
0.67 81.6 0.59 At5g07500 830642 PEI1 Encodes an embryo-specific zinc finger transcription factor required for heart-stage embryo formation. O.I. H.G. S.X.
0.66 80.1 0.60 At5g62800 836401 seven in absentia (SINA) family protein F:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, protein ubiquitination, ubiquitin-dependent protein catabolic process;C:nucleus;MPOF O.I. H.G. S.X.
0.65 79.6 0.60 At3g26790 822293 FUS3 (FUSCA 3) Transcriptional factor with high similarity to the B3 region of the VP1/ABI3-like proteins. Full length FUS3 protein binds to the highly conserved RY motif [DNA motif CATGCA(TG)], present in many seed-specific promoters, and the B3 domains of this transcription factor is necessary for the specific interaction with the RY element. Transcriptional activity of FUS3 requires the B3 DNA-binding domain and an activation domain. FUS3 specifies cotyledon identity. Regulator of gene expression during late embryogenesis. Involved in the control foliar organ identity in Arabidopsis by regulating the synthesis of two hormones, abscisic acid and gibberellin. FUS3 together with LEC1 positively regulate the abundance of the ABI3 protein in the seed. O.I. H.G. S.X.
0.64 78.9 0.56 At1g62290 842526 aspartyl protease family protein F:aspartic-type endopeptidase activity;P:proteolysis, lipid metabolic process;C:vacuole;MFOPB O.I. H.G. S.X.
0.64 78.9 0.55 At1g09380 837460 integral membrane family protein / nodulin MtN21-related F:unknown;P:unknown;C:endomembrane system, membrane;BOPAMF O.I. H.G. S.X.
0.64 78.9 0.57 At3g62730 825448 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB O.I. H.G. S.X.
0.63 78.1 0.61 At5g64190 836540 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.61 76.7 0.58 At5g07190 830610 ATS3 (ARABIDOPSIS THALIANA SEED GENE 3) Gene is expressed preferentially in the embryo and encodes a unique protein of unknown function. O.I. H.G. S.X.
0.59 74.7 0.53 At1g65880 842900 BZO1 (BENZOYLOXYGLUCOSINOLATE 1) Encodes a benzoate-CoA ligase. Involved in the biosynthesis of benzoyloxyglucosinolate in Arabidopsis seeds. O.I. H.G. S.X.
0.57 73.8 0.58 At4g25980 828704 cationic peroxidase, putative F:peroxidase activity;P:response to oxidative stress;C:endomembrane system;PFOM O.I. H.G. S.X.
0.56 73.0 0.60 At2g41070 818706 EEL (ENHANCED EM LEVEL) Transcription factor homologous to ABI5. Regulates AtEm1 expression by binding directly at the AtEm1 promoter. Located in the nucleus and expressed during seed maturation in the cotyledons and later in the whole embryo. O.I. H.G. S.X.
0.55 70.6 0.57 At1g03890 839379 cupin family protein F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;PBMO O.I. H.G. S.X.
0.55 70.6 0.53 At4g27170 828825 2S seed storage protein 4 / 2S albumin storage protein / NWMU2-2S albumin 4 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO O.I. H.G. S.X.
0.54 69.5 0.54 At4g27150 828823 2S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO O.I. H.G. S.X.
0.54 69.5 0.53 At3g60730 825244 pectinesterase family protein F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFM O.I. H.G. S.X.
0.53 68.6 0.54 At4g27140 828822 2S seed storage protein 1 / 2S albumin storage protein / NWMU1-2S albumin 1 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PMO O.I. H.G. S.X.
0.51 66.3 0.58 At1g54860 841925 unknown protein F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;P O.I. H.G. S.X.
0.50 65.3 0.53 At1g03880 839383 CRU2 (CRUCIFERIN 2) Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds. O.I. H.G. S.X.
0.50 65.3 0.54 At4g26740 828781 ATS1 (ARABIDOPSIS THALIANA SEED GENE 1) Gene is expressed preferentially in the embryo, has similarity to a rice ABA-responsive gene, EFA27. O.I. H.G. S.X.
0.49 63.5 0.59 At2g23190 816851 CYP81D7 member of CYP81D O.I. H.G. S.X.
0.48 62.5 0.54 At3g25160 822107 ER lumen protein retaining receptor family protein F:ER retention sequence binding, receptor activity;P:protein retention in ER lumen, protein transport;C:integral to membrane;MOPF O.I. H.G. S.X.
0.46 59.8 0.58 At2g05910 815143 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PB O.I. H.G. S.X.
0.46 59.8 0.52 At4g25140 828617 OLEO1 (OLEOSIN 1) Encodes oleosin1, a protein found in oil bodies, involved in seed lipid accumulation. Suppression of OLEO1 (and OLEO2) resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination. Functions in freezing tolerance of seeds. O.I. H.G. S.X.
0.45 58.3 0.54 At3g01570 821106 glycine-rich protein / oleosin F:molecular_function unknown;P:lipid storage;C:monolayer-surrounded lipid storage body, integral to membrane, membrane;P O.I. H.G. S.X.
0.43 55.3 0.54 At3g27660 822388 OLEO4 (OLEOSIN 4) Encodes oleosin4 (Plant Cell, 2006, 18:1961), a protein found in oil bodies, involved in seed lipid accumulation. Functions in freezing tolerance of seeds. Note: also referred to as OLE3 in Plant Journal 2008, 55:798. O.I. H.G. S.X.
0.42 53.9 0.53 At1g17810 838359 BETA-TIP (BETA-TONOPLAST INTRINSIC PROTEIN) beta-tonoplast intrinsic protein (beta-TIP) mRNA, complete O.I. H.G. S.X.
0.39 48.4 0.56 At3g14630 820691 CYP72A9 putative cytochrome P450 O.I. H.G. S.X.
0.38 46.7 0.53 At2g28490 817397 cupin family protein F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;BMPOFVA O.I. H.G. S.X.
0.31 33.8 0.54 At1g29680 839845 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPF O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.67	81.6	1.00	At2g43520	818953	ATTI2	Encodes putative trypsin inhibitor protein which may function in defense against herbivory. Member of the defensin-like (DEFL) family.	O.I.	H.G.	S.X.
0.80	89.8	0.63	At1g11170	837658	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POB	O.I.	H.G.	S.X.
0.78	88.6	0.59	At3g63040	825479	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.76	87.4	0.64	At1g68380	843167	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.75	86.9	0.53	At2g47120	819325	short-chain dehydrogenase/reductase (SDR) family protein	F:oxidoreductase activity, binding, catalytic activity;P:metabolic process;C:cellular_component unknown;BOMFPAV	O.I.	H.G.	S.X.
0.75	86.9	0.61	At5g49190	834978	SUS2 (SUCROSE SYNTHASE 2)	Encodes a putative sucrose synthase (SUS2). The activity of the enzyme could not be assayed as proved to be insoluble (PMID 17257168). Induced specifically by O(2) deficiency.	O.I.	H.G.	S.X.
0.74	86.1	0.58	At3g12203	820399	scpl17 (serine carboxypeptidase-like 17)	F:serine-type carboxypeptidase activity;P:proteolysis;C:endomembrane system;PMFOB	O.I.	H.G.	S.X.
0.74	86.1	0.59	At4g34520	829603	KCS18	Encodes KCS18, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids).	O.I.	H.G.	S.X.
0.74	86.1	0.52	At5g51210	835196	OLEO3 (OLEOSIN3)	Encodes oleosin3, a protein found in oil bodies, involved in seed lipid accumulation.	O.I.	H.G.	S.X.
0.72	84.8	0.59	At5g09640	830823	SCPL19	encodes a serine carboxypeptidase-like (SCPL) protein. Mutants accumulate sinapoylglucose instead of sinapoylcholine, and have increased levels of choline and decreased activity of the enzyme sinapoylglucose:choline sinapoyltransferase.	O.I.	H.G.	S.X.
0.72	84.8	0.55	At1g78500	844186	pentacyclic triterpene synthase, putative	Encodes a protein with pentacyclic triterpene synthase activity. In addition to the compounds lupeol, α-amyrin and bauerenol, this enzyme was also shown to produce two seco-triterpenes: α- and β-seco-amyrin.	O.I.	H.G.	S.X.
0.69	82.9	0.58	At4g36700	829823	cupin family protein	F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;MOFBPVA	O.I.	H.G.	S.X.
0.67	81.6	0.59	At5g07500	830642	PEI1	Encodes an embryo-specific zinc finger transcription factor required for heart-stage embryo formation.	O.I.	H.G.	S.X.
0.66	80.1	0.60	At5g62800	836401	seven in absentia (SINA) family protein	F:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, protein ubiquitination, ubiquitin-dependent protein catabolic process;C:nucleus;MPOF	O.I.	H.G.	S.X.
0.65	79.6	0.60	At3g26790	822293	FUS3 (FUSCA 3)	Transcriptional factor with high similarity to the B3 region of the VP1/ABI3-like proteins. Full length FUS3 protein binds to the highly conserved RY motif [DNA motif CATGCA(TG)], present in many seed-specific promoters, and the B3 domains of this transcription factor is necessary for the specific interaction with the RY element. Transcriptional activity of FUS3 requires the B3 DNA-binding domain and an activation domain. FUS3 specifies cotyledon identity. Regulator of gene expression during late embryogenesis. Involved in the control foliar organ identity in Arabidopsis by regulating the synthesis of two hormones, abscisic acid and gibberellin. FUS3 together with LEC1 positively regulate the abundance of the ABI3 protein in the seed.	O.I.	H.G.	S.X.
0.64	78.9	0.56	At1g62290	842526	aspartyl protease family protein	F:aspartic-type endopeptidase activity;P:proteolysis, lipid metabolic process;C:vacuole;MFOPB	O.I.	H.G.	S.X.
0.64	78.9	0.55	At1g09380	837460	integral membrane family protein / nodulin MtN21-related	F:unknown;P:unknown;C:endomembrane system, membrane;BOPAMF	O.I.	H.G.	S.X.
0.64	78.9	0.57	At3g62730	825448	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB	O.I.	H.G.	S.X.
0.63	78.1	0.61	At5g64190	836540	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.61	76.7	0.58	At5g07190	830610	ATS3 (ARABIDOPSIS THALIANA SEED GENE 3)	Gene is expressed preferentially in the embryo and encodes a unique protein of unknown function.	O.I.	H.G.	S.X.
0.59	74.7	0.53	At1g65880	842900	BZO1 (BENZOYLOXYGLUCOSINOLATE 1)	Encodes a benzoate-CoA ligase. Involved in the biosynthesis of benzoyloxyglucosinolate in Arabidopsis seeds.	O.I.	H.G.	S.X.
0.57	73.8	0.58	At4g25980	828704	cationic peroxidase, putative	F:peroxidase activity;P:response to oxidative stress;C:endomembrane system;PFOM	O.I.	H.G.	S.X.
0.56	73.0	0.60	At2g41070	818706	EEL (ENHANCED EM LEVEL)	Transcription factor homologous to ABI5. Regulates AtEm1 expression by binding directly at the AtEm1 promoter. Located in the nucleus and expressed during seed maturation in the cotyledons and later in the whole embryo.	O.I.	H.G.	S.X.
0.55	70.6	0.57	At1g03890	839379	cupin family protein	F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;PBMO	O.I.	H.G.	S.X.
0.55	70.6	0.53	At4g27170	828825	2S seed storage protein 4 / 2S albumin storage protein / NWMU2-2S albumin 4	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.54	69.5	0.54	At4g27150	828823	2S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.54	69.5	0.53	At3g60730	825244	pectinesterase family protein	F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:endomembrane system, cell wall, plant-type cell wall;PBFM	O.I.	H.G.	S.X.
0.53	68.6	0.54	At4g27140	828822	2S seed storage protein 1 / 2S albumin storage protein / NWMU1-2S albumin 1	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PMO	O.I.	H.G.	S.X.
0.51	66.3	0.58	At1g54860	841925	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;P	O.I.	H.G.	S.X.
0.50	65.3	0.53	At1g03880	839383	CRU2 (CRUCIFERIN 2)	Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.	O.I.	H.G.	S.X.
0.50	65.3	0.54	At4g26740	828781	ATS1 (ARABIDOPSIS THALIANA SEED GENE 1)	Gene is expressed preferentially in the embryo, has similarity to a rice ABA-responsive gene, EFA27.	O.I.	H.G.	S.X.
0.49	63.5	0.59	At2g23190	816851	CYP81D7	member of CYP81D	O.I.	H.G.	S.X.
0.48	62.5	0.54	At3g25160	822107	ER lumen protein retaining receptor family protein	F:ER retention sequence binding, receptor activity;P:protein retention in ER lumen, protein transport;C:integral to membrane;MOPF	O.I.	H.G.	S.X.
0.46	59.8	0.58	At2g05910	815143	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PB	O.I.	H.G.	S.X.
0.46	59.8	0.52	At4g25140	828617	OLEO1 (OLEOSIN 1)	Encodes oleosin1, a protein found in oil bodies, involved in seed lipid accumulation. Suppression of OLEO1 (and OLEO2) resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination. Functions in freezing tolerance of seeds.	O.I.	H.G.	S.X.
0.45	58.3	0.54	At3g01570	821106	glycine-rich protein / oleosin	F:molecular_function unknown;P:lipid storage;C:monolayer-surrounded lipid storage body, integral to membrane, membrane;P	O.I.	H.G.	S.X.
0.43	55.3	0.54	At3g27660	822388	OLEO4 (OLEOSIN 4)	Encodes oleosin4 (Plant Cell, 2006, 18:1961), a protein found in oil bodies, involved in seed lipid accumulation. Functions in freezing tolerance of seeds. Note: also referred to as OLE3 in Plant Journal 2008, 55:798.	O.I.	H.G.	S.X.
0.42	53.9	0.53	At1g17810	838359	BETA-TIP (BETA-TONOPLAST INTRINSIC PROTEIN)	beta-tonoplast intrinsic protein (beta-TIP) mRNA, complete	O.I.	H.G.	S.X.
0.39	48.4	0.56	At3g14630	820691	CYP72A9	putative cytochrome P450	O.I.	H.G.	S.X.
0.38	46.7	0.53	At2g28490	817397	cupin family protein	F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;BMPOFVA	O.I.	H.G.	S.X.
0.31	33.8	0.54	At1g29680	839845	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPF	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
56.5 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.2 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.3 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.7 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.4 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.9 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
45.0 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.1 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.0 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.7 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.6 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.4 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.3 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.6 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
38.0 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.3 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.1 99.7 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.1 99.7 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
23.1 99.6 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
22.1 99.6 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.3 99.5 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
18.0 99.5 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.4 99.5 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.8 99.5 GSM184893 Arabidopsis, root cells, columella root cap, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
14.9 99.4 GSM266668 Arabidopsis, root cells, columella root cap, -Fe, replicate 3 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
14.7 99.4 GSM184910 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
14.0 99.4 GSM311281 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
13.5 99.4 GSM184892 Arabidopsis, root cells, columella root cap, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
12.9 99.3 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
12.3 99.3 GSM266666 Arabidopsis, root cells, columella root cap, -Fe, replicate 1 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.4 99.3 GSM131703 ATGE_83_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
11.2 99.2 GSM131700 ATGE_82_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
11.1 99.2 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.9 99.2 GSM131607 ATGE_42_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
10.8 99.2 GSM131702 ATGE_82_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.8 99.2 GSM10454 WT Post-Mature Green Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
10.5 99.2 GSM131701 ATGE_82_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.5 99.2 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.5 99.2 GSM184912 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
10.4 99.2 GSM131705 ATGE_83_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.3 99.2 GSM131704 ATGE_83_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.2 99.2 GSM284385 Arabidopsis GEP6 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.1 99.2 GSM131706 ATGE_84_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
9.9 99.1 GSM131707 ATGE_84_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
9.5 99.1 E-ATMX-35-raw-cel-1574334848
9.4 99.1 GSM131606 ATGE_42_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
9.2 99.1 GSM184911 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
9.1 99.1 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.1 99.1 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.0 99.1 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.9 99.0 GSM142736 DH001_ATH1_A3-TCP1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
8.9 99.0 GSM131708 ATGE_84_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
8.6 99.0 GSM10456 WT Post-Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
56.5	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.2	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.3	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.7	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.4	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.9	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
45.0	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.1	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.0	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.7	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.6	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.4	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.3	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.6	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
38.0	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.3	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.1	99.7	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.1	99.7	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
23.1	99.6	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
22.1	99.6	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
18.3	99.5	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
18.0	99.5	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.4	99.5	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.8	99.5	GSM184893	Arabidopsis, root cells, columella root cap, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
14.9	99.4	GSM266668	Arabidopsis, root cells, columella root cap, -Fe, replicate 3	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
14.7	99.4	GSM184910	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
14.0	99.4	GSM311281	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
13.5	99.4	GSM184892	Arabidopsis, root cells, columella root cap, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
12.9	99.3	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
12.3	99.3	GSM266666	Arabidopsis, root cells, columella root cap, -Fe, replicate 1	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.4	99.3	GSM131703	ATGE_83_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
11.2	99.2	GSM131700	ATGE_82_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
11.1	99.2	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.9	99.2	GSM131607	ATGE_42_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
10.8	99.2	GSM131702	ATGE_82_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.8	99.2	GSM10454	WT Post-Mature Green Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
10.5	99.2	GSM131701	ATGE_82_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.5	99.2	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.5	99.2	GSM184912	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
10.4	99.2	GSM131705	ATGE_83_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.3	99.2	GSM131704	ATGE_83_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.2	99.2	GSM284385	Arabidopsis GEP6	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.1	99.2	GSM131706	ATGE_84_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
9.9	99.1	GSM131707	ATGE_84_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
9.5	99.1	E-ATMX-35-raw-cel-1574334848
9.4	99.1	GSM131606	ATGE_42_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
9.2	99.1	GSM184911	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
9.1	99.1	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.1	99.1	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.0	99.1	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.9	99.0	GSM142736	DH001_ATH1_A3-TCP1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
8.9	99.0	GSM131708	ATGE_84_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
8.6	99.0	GSM10456	WT Post-Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.136 4 GO:0019915 The accumulation and maintenance in cells or tissues of lipids, compounds soluble in organic solvents but insoluble or sparingly soluble in aqueous solvents. Lipid reserves can be accumulated during early developmental stages for mobilization and utilization at later stages of development.
0.089 2 GO:0010344 The cellular process by which an seed oilbody is synthesized, aggregates, and bonds together. Seed oilbodies are simple organelles comprising a matrix of triglyceride surrounded by a phospholipid monolayer embedded and covered with unique proteins called oleosins. Seed oilbodies supply the energy requirements for the growth of the seedling after germination.
0.077 2 GO:0050826 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 freezing stimulus, temperatures below 0 degrees Celsius.

SF	Genes	GO ID	Process Name
0.136	4	GO:0019915	The accumulation and maintenance in cells or tissues of lipids, compounds soluble in organic solvents but insoluble or sparingly soluble in aqueous solvents. Lipid reserves can be accumulated during early developmental stages for mobilization and utilization at later stages of development.
0.089	2	GO:0010344	The cellular process by which an seed oilbody is synthesized, aggregates, and bonds together. Seed oilbodies are simple organelles comprising a matrix of triglyceride surrounded by a phospholipid monolayer embedded and covered with unique proteins called oleosins. Seed oilbodies supply the energy requirements for the growth of the seedling after germination.
0.077	2	GO:0050826	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 freezing stimulus, temperatures below 0 degrees Celsius.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.016 1 00500 Starch and sucrose metabolism
0.014 1 00940 Phenylpropanoid biosynthesis
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.016	1	00500	Starch and sucrose metabolism
0.014	1	00940	Phenylpropanoid biosynthesis
0.002	1	01100	Metabolic pathways

Inter-species module comparison

A co-expression module including the poplar gene, PtpAffx.214976.1.S1_x_at, orthologous to the query gene, At2g43520

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.67 91.1 PtpAffx.214976.1.S1_x_at - hypothetical protein - 6e-4 At5g66815 unknown protein O.I. H.G. S.X.
0.14 23.5 PtpAffx.214459.1.S1_at - hypothetical protein - 1e-3 At1g31160 zinc-binding protein, putative / protein kinase C inhibitor, putative O.I. H.G. S.X.
0.12 19.6 PtpAffx.147371.1.A1_at - - - 6e+0 At5g19175 - O.I. H.G. S.X.
0.09 14.6 PtpAffx.208652.1.S1_at - hypothetical protein - 3e-1 At2g14288 - O.I. H.G. S.X.
0.07 11.6 PtpAffx.205902.1.S1_at - hypothetical protein - 2e-1 At2g36080 DNA-binding protein, putative O.I. H.G. S.X.
0.04 6.9 PtpAffx.210031.1.S1_at - hypothetical protein - 8e-1 At1g32610 hydroxyproline-rich glycoprotein family protein O.I. H.G. S.X.
0.04 6.9 PtpAffx.214276.1.S1_at - glutamate-gated kainate-type ion channel receptor subunit GluR5 - 2e-3 At5g11180 ATGLR2.6 O.I. H.G. S.X.
0.03 5.2 PtpAffx.217816.1.S1_s_at - hypothetical protein - 3e-3 At5g50700 short-chain dehydrogenase/reductase (SDR) family protein O.I. H.G. S.X.
0.02 3.6 PtpAffx.214592.1.S1_x_at - hypothetical protein - 1e+0 At5g25760 PEX4 (PEROXIN4) O.I. H.G. S.X.
0.02 3.6 PtpAffx.87608.1.S1_at - hypothetical protein - 4e-8 At5g59300 UBC7 (UBIQUITIN CARRIER PROTEIN 7) O.I. H.G. S.X.
0.02 3.6 Ptp.3013.1.S1_at - - - 5e+0 At1g06930 unknown protein O.I. H.G. S.X.
0.01 2.2 PtpAffx.20694.3.A1_at - - - 2e-1 At4g15800 RALFL33 (ralf-like 33) O.I. H.G. S.X.
0.01 2.2 PtpAffx.211035.1.S1_at - hypothetical protein - 6e-3 At5g37360 unknown protein O.I. H.G. S.X.
0.01 2.2 PtpAffx.13622.1.A1_at - hypothetical protein - 2e-1 At1g80040 unknown protein O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.67	91.1	PtpAffx.214976.1.S1_x_at	-	hypothetical protein	-	6e-4	At5g66815	unknown protein	O.I.	H.G.	S.X.
0.14	23.5	PtpAffx.214459.1.S1_at	-	hypothetical protein	-	1e-3	At1g31160	zinc-binding protein, putative / protein kinase C inhibitor, putative	O.I.	H.G.	S.X.
0.12	19.6	PtpAffx.147371.1.A1_at	-	-	-	6e+0	At5g19175	-	O.I.	H.G.	S.X.
0.09	14.6	PtpAffx.208652.1.S1_at	-	hypothetical protein	-	3e-1	At2g14288	-	O.I.	H.G.	S.X.
0.07	11.6	PtpAffx.205902.1.S1_at	-	hypothetical protein	-	2e-1	At2g36080	DNA-binding protein, putative	O.I.	H.G.	S.X.
0.04	6.9	PtpAffx.210031.1.S1_at	-	hypothetical protein	-	8e-1	At1g32610	hydroxyproline-rich glycoprotein family protein	O.I.	H.G.	S.X.
0.04	6.9	PtpAffx.214276.1.S1_at	-	glutamate-gated kainate-type ion channel receptor subunit GluR5	-	2e-3	At5g11180	ATGLR2.6	O.I.	H.G.	S.X.
0.03	5.2	PtpAffx.217816.1.S1_s_at	-	hypothetical protein	-	3e-3	At5g50700	short-chain dehydrogenase/reductase (SDR) family protein	O.I.	H.G.	S.X.
0.02	3.6	PtpAffx.214592.1.S1_x_at	-	hypothetical protein	-	1e+0	At5g25760	PEX4 (PEROXIN4)	O.I.	H.G.	S.X.
0.02	3.6	PtpAffx.87608.1.S1_at	-	hypothetical protein	-	4e-8	At5g59300	UBC7 (UBIQUITIN CARRIER PROTEIN 7)	O.I.	H.G.	S.X.
0.02	3.6	Ptp.3013.1.S1_at	-	-	-	5e+0	At1g06930	unknown protein	O.I.	H.G.	S.X.
0.01	2.2	PtpAffx.20694.3.A1_at	-	-	-	2e-1	At4g15800	RALFL33 (ralf-like 33)	O.I.	H.G.	S.X.
0.01	2.2	PtpAffx.211035.1.S1_at	-	hypothetical protein	-	6e-3	At5g37360	unknown protein	O.I.	H.G.	S.X.
0.01	2.2	PtpAffx.13622.1.A1_at	-	hypothetical protein	-	2e-1	At1g80040	unknown protein	O.I.	H.G.	S.X.

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

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At2g43520
Gene name	ATTI2
Module size	41 genes
NF	0.58
%ile	79.6

Co-expression analysis

Gene ID At2g43520 Gene name ATTI2 Module size 41 genes NF 0.58 %ile 79.6

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 KEGG0.016100500Starch and sucrose metabolism0.014100940Phenylpropanoid biosynthesis0.002101100Metabolic pathways

Inter-species module comparison

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

Gene ID At2g43520

Gene name ATTI2

Module size 41 genes

NF 0.58

%ile 79.6

: 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
0.016 1 00500 Starch and sucrose metabolism
0.014 1 00940 Phenylpropanoid biosynthesis
0.002 1 01100 Metabolic pathways

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