CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM142802

Assay name SS001_ATH1_A5-Smith-5

GSE experiment GSE6174: Gene expression and carbohydrate metabolism through the diurnal cycle

Click Gene ID to show a list of GSM assays in which the gene are specifically expressed.

Std2 GX %ile Std GX Gene ID Repr. ID Gene name Functional description O.I. C.G. H.G. Other DB
28.1 99.7 122.1 At5g37260 833700 RVE2 (REVEILLE 2) Encodes a MYB family transcription factor Circadian 1 (CIR1). Involved in circadian regulation in Arabidopsis. O.I. C.G. H.G.
25.0 99.6 38.3 At1g49200 841343 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV O.I. C.G. H.G.
18.5 99.5 39.2 At5g58310 835943 MES18 (METHYL ESTERASE 18) Encodes a protein shown to have methyl IAA esterase activity in vitro. This protein does not act on methyl JA, MeSA, MeGA4, or MEGA9 in vitro. O.I. C.G. H.G.
17.0 99.5 144.6 At1g68520 843181 zinc finger (B-box type) family protein F:transcription factor activity, zinc ion binding;P:regulation of transcription;C:intracellular;POMF O.I. C.G. H.G.
16.3 99.5 237.6 At3g48360 823994 BT2 (BTB AND TAZ DOMAIN PROTEIN 2) encodes a protein (BT2) that is an essential component of the TAC1-mediated telomerase activation pathway. Acts redundantly with BT3 and BT1 during female gametophyte development and with BT3 during male gametophyte development. O.I. C.G. H.G.
15.4 99.5 108.4 At2g41560 818754 ACA4 (AUTO-INHIBITED CA(2+)-ATPASE, ISOFORM 4) encodes a calmodulin-regulated Ca(2+)-ATPase that improves salt tolerance in yeast. localized to the vacuole. O.I. C.G. H.G.
13.8 99.4 190.2 At5g65010 836625 ASN2 (ASPARAGINE SYNTHETASE 2) Encodes asparagine synthetase (ASN2). O.I. C.G. H.G.
13.5 99.4 59.5 At2g26980 817240 CIPK3 (CBL-INTERACTING PROTEIN KINASE 3) encodes a serine-threonine protein kinase whose expression increases in response to abscisic acid, cold, drought, high salt, and wounding conditions. The gene is expressed in developing seeds and seedlings. Lines carrying a T-DNA insertions have reduced germination efficiency and expression of cold, high-salt, and abscisic acid marker genes are altered, but not drought-response markers. O.I. C.G. H.G.
13.4 99.4 35.5 At3g07650 819956 COL9 (CONSTANS-LIKE 9) This gene belongs to the CO (CONSTANS) gene family. This gene family is divided in three subgroups: groups III, to which COL9 belongs, is characterised by one B-box (supposed to regulate protein-protein interactions) and a second diverged zinc finger. COL9 downregulates expression of CO (CONSTANS) as well as FT and SOC1 which are known regulatory targets of CO. O.I. C.G. H.G.
13.0 99.4 34.5 At2g36430 818217 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
12.7 99.3 164.8 At5g10380 830902 RING1 Encodes a RING finger domain protein with E3 ligase activity that is localized to the lipid rafts of the plasma membrane. Expression is increased in response to fungal pathogen. May be involved in regulation of programmed cell death by facilitating degredation of regulation of PDC activators. O.I. C.G. H.G.
12.0 99.3 46.4 At1g50730 841495 unknown protein F:unknown;P:unknown;C:unknown;MOPF O.I. C.G. H.G.
11.7 99.3 19.5 At2g04790 815022 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PO O.I. C.G. H.G.
11.3 99.3 14.8 At3g15310 820762 transposable element gene F:unknown;P:unknown;C:unknown O.I. C.G. H.G.
11.0 99.2 78.2 At1g55000 841942 peptidoglycan-binding LysM domain-containing protein F:molecular_function unknown;P:cell wall macromolecule catabolic process;C:endomembrane system;MPOB O.I. C.G. H.G.
11.0 99.2 18.4 At5g56860 835788 GNC (GATA, nitrate-inducible, carbon metabolism-involved) F:transcription factor activity;P:glucose mediated signaling, regulation of nitrogen compound metabolic process;C:nucleus;FPOMB O.I. C.G. H.G.
10.7 99.2 24.8 At4g18740 827608 transcription termination factor F:transcription termination factor activity;P:transcription termination;C:unknown;MPOBVF O.I. C.G. H.G.
10.5 99.2 207.0 At1g69530 843288 ATEXPA1 (ARABIDOPSIS THALIANA EXPANSIN A1) Member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana. O.I. C.G. H.G.
10.4 99.2 43.8 At5g64280 836549 DiT2.2 (dicarboxylate transporter 2.2) F:oxoglutarate:malate antiporter activity;P:malate transport, sodium ion transport;C:chloroplast, membrane;BOPAFMV O.I. C.G. H.G.
10.2 99.2 148.0 At2g40100 818599 LHCB4.3 (light harvesting complex PSII) Lhcb4:3 protein (Lhcb4.3, light harvesting complex of photosystem II O.I. C.G. H.G.
10.2 99.2 32.0 At4g04540 825785 protein kinase family protein F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA O.I. C.G. H.G.
10.1 99.2 238.1 At4g17090 827419 CT-BMY (CHLOROPLAST BETA-AMYLASE) Encodes a beta-amylase targeted to the chloroplast. Transgenic BMY8 RNAi lines fail to accumulate maltose during cold shock suggesting that maltose accumulation coincides with BMY8 expression. Apart from maltose, the sugar content of the RNAi lines were similar to wildtype (glucose and sucrose unaffected). O.I. C.G. H.G.
9.3 99.1 81.8 At3g45860 823729 receptor-like protein kinase, putative F:kinase activity;P:defense response;C:endomembrane system;MPOBFVA O.I. C.G. H.G.
9.2 99.1 57.8 At1g42550 840860 PMI1 (PLASTID MOVEMENT IMPAIRED1) Encodes a plant-specific protein of unknown function that appears to be conserved among angiosperms. O.I. C.G. H.G.
9.0 99.1 38.5 At1g22630 838869 unknown protein F:unknown;P:unknown;C:chloroplast;MPBO O.I. C.G. H.G.
8.9 99.0 74.0 At3g17510 821016 CIPK1 (CBL-INTERACTING PROTEIN KINASE 1) Encodes a CBL-interacting protein kinase. Specifically interacts with ECT1 and ECT2. O.I. C.G. H.G.
8.7 99.0 184.9 At3g25690 822157 CHUP1 (CHLOROPLAST UNUSUAL POSITIONING 1) actin binding protein required for normal chloroplast positioning O.I. C.G. H.G.
8.7 99.0 70.0 At4g36540 829806 BEE2 (BR Enhanced Expression 2) F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PFMO O.I. C.G. H.G.
8.7 99.0 15.6 At5g42750 834284 BKI1 (BRI1 kinase inhibitor 1) Encodes a plasma-membrane associated phosphoprotein that interacts directly with the kinase domain of BRI1. It interferes with the interaction between BRI1 with its signalling partner, the plasma membrane localised LRR-receptor kinase BAK1. O.I. C.G. H.G.

Std2 GX	%ile	Std GX	Gene ID	Repr. ID	Gene name	Functional description	O.I.	C.G.	H.G.
28.1	99.7	122.1	At5g37260	833700	RVE2 (REVEILLE 2)	Encodes a MYB family transcription factor Circadian 1 (CIR1). Involved in circadian regulation in Arabidopsis.	O.I.	C.G.	H.G.
25.0	99.6	38.3	At1g49200	841343	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMOFV	O.I.	C.G.	H.G.
18.5	99.5	39.2	At5g58310	835943	MES18 (METHYL ESTERASE 18)	Encodes a protein shown to have methyl IAA esterase activity in vitro. This protein does not act on methyl JA, MeSA, MeGA4, or MEGA9 in vitro.	O.I.	C.G.	H.G.
17.0	99.5	144.6	At1g68520	843181	zinc finger (B-box type) family protein	F:transcription factor activity, zinc ion binding;P:regulation of transcription;C:intracellular;POMF	O.I.	C.G.	H.G.
16.3	99.5	237.6	At3g48360	823994	BT2 (BTB AND TAZ DOMAIN PROTEIN 2)	encodes a protein (BT2) that is an essential component of the TAC1-mediated telomerase activation pathway. Acts redundantly with BT3 and BT1 during female gametophyte development and with BT3 during male gametophyte development.	O.I.	C.G.	H.G.
15.4	99.5	108.4	At2g41560	818754	ACA4 (AUTO-INHIBITED CA(2+)-ATPASE, ISOFORM 4)	encodes a calmodulin-regulated Ca(2+)-ATPase that improves salt tolerance in yeast. localized to the vacuole.	O.I.	C.G.	H.G.
13.8	99.4	190.2	At5g65010	836625	ASN2 (ASPARAGINE SYNTHETASE 2)	Encodes asparagine synthetase (ASN2).	O.I.	C.G.	H.G.
13.5	99.4	59.5	At2g26980	817240	CIPK3 (CBL-INTERACTING PROTEIN KINASE 3)	encodes a serine-threonine protein kinase whose expression increases in response to abscisic acid, cold, drought, high salt, and wounding conditions. The gene is expressed in developing seeds and seedlings. Lines carrying a T-DNA insertions have reduced germination efficiency and expression of cold, high-salt, and abscisic acid marker genes are altered, but not drought-response markers.	O.I.	C.G.	H.G.
13.4	99.4	35.5	At3g07650	819956	COL9 (CONSTANS-LIKE 9)	This gene belongs to the CO (CONSTANS) gene family. This gene family is divided in three subgroups: groups III, to which COL9 belongs, is characterised by one B-box (supposed to regulate protein-protein interactions) and a second diverged zinc finger. COL9 downregulates expression of CO (CONSTANS) as well as FT and SOC1 which are known regulatory targets of CO.	O.I.	C.G.	H.G.
13.0	99.4	34.5	At2g36430	818217	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
12.7	99.3	164.8	At5g10380	830902	RING1	Encodes a RING finger domain protein with E3 ligase activity that is localized to the lipid rafts of the plasma membrane. Expression is increased in response to fungal pathogen. May be involved in regulation of programmed cell death by facilitating degredation of regulation of PDC activators.	O.I.	C.G.	H.G.
12.0	99.3	46.4	At1g50730	841495	unknown protein	F:unknown;P:unknown;C:unknown;MOPF	O.I.	C.G.	H.G.
11.7	99.3	19.5	At2g04790	815022	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PO	O.I.	C.G.	H.G.
11.3	99.3	14.8	At3g15310	820762	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	C.G.	H.G.
11.0	99.2	78.2	At1g55000	841942	peptidoglycan-binding LysM domain-containing protein	F:molecular_function unknown;P:cell wall macromolecule catabolic process;C:endomembrane system;MPOB	O.I.	C.G.	H.G.
11.0	99.2	18.4	At5g56860	835788	GNC (GATA, nitrate-inducible, carbon metabolism-involved)	F:transcription factor activity;P:glucose mediated signaling, regulation of nitrogen compound metabolic process;C:nucleus;FPOMB	O.I.	C.G.	H.G.
10.7	99.2	24.8	At4g18740	827608	transcription termination factor	F:transcription termination factor activity;P:transcription termination;C:unknown;MPOBVF	O.I.	C.G.	H.G.
10.5	99.2	207.0	At1g69530	843288	ATEXPA1 (ARABIDOPSIS THALIANA EXPANSIN A1)	Member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.	O.I.	C.G.	H.G.
10.4	99.2	43.8	At5g64280	836549	DiT2.2 (dicarboxylate transporter 2.2)	F:oxoglutarate:malate antiporter activity;P:malate transport, sodium ion transport;C:chloroplast, membrane;BOPAFMV	O.I.	C.G.	H.G.
10.2	99.2	148.0	At2g40100	818599	LHCB4.3 (light harvesting complex PSII)	Lhcb4:3 protein (Lhcb4.3, light harvesting complex of photosystem II	O.I.	C.G.	H.G.
10.2	99.2	32.0	At4g04540	825785	protein kinase family protein	F:kinase activity;P:protein amino acid phosphorylation;C:endomembrane system;MPOBFVA	O.I.	C.G.	H.G.
10.1	99.2	238.1	At4g17090	827419	CT-BMY (CHLOROPLAST BETA-AMYLASE)	Encodes a beta-amylase targeted to the chloroplast. Transgenic BMY8 RNAi lines fail to accumulate maltose during cold shock suggesting that maltose accumulation coincides with BMY8 expression. Apart from maltose, the sugar content of the RNAi lines were similar to wildtype (glucose and sucrose unaffected).	O.I.	C.G.	H.G.
9.3	99.1	81.8	At3g45860	823729	receptor-like protein kinase, putative	F:kinase activity;P:defense response;C:endomembrane system;MPOBFVA	O.I.	C.G.	H.G.
9.2	99.1	57.8	At1g42550	840860	PMI1 (PLASTID MOVEMENT IMPAIRED1)	Encodes a plant-specific protein of unknown function that appears to be conserved among angiosperms.	O.I.	C.G.	H.G.
9.0	99.1	38.5	At1g22630	838869	unknown protein	F:unknown;P:unknown;C:chloroplast;MPBO	O.I.	C.G.	H.G.
8.9	99.0	74.0	At3g17510	821016	CIPK1 (CBL-INTERACTING PROTEIN KINASE 1)	Encodes a CBL-interacting protein kinase. Specifically interacts with ECT1 and ECT2.	O.I.	C.G.	H.G.
8.7	99.0	184.9	At3g25690	822157	CHUP1 (CHLOROPLAST UNUSUAL POSITIONING 1)	actin binding protein required for normal chloroplast positioning	O.I.	C.G.	H.G.
8.7	99.0	70.0	At4g36540	829806	BEE2 (BR Enhanced Expression 2)	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PFMO	O.I.	C.G.	H.G.
8.7	99.0	15.6	At5g42750	834284	BKI1 (BRI1 kinase inhibitor 1)	Encodes a plasma-membrane associated phosphoprotein that interacts directly with the kinase domain of BRI1. It interferes with the interaction between BRI1 with its signalling partner, the plasma membrane localised LRR-receptor kinase BAK1.	O.I.	C.G.	H.G.

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GSM ID	GSM142802
Assay name	SS001_ATH1_A5-Smith-5
GSE experiment	GSE6174: Gene expression and carbohydrate metabolism through the diurnal cycle

Microarray experiments to specifically-expressed genes

GSM ID GSM142802 Assay name SS001_ATH1_A5-Smith-5 GSE experiment GSE6174: Gene expression and carbohydrate metabolism through the diurnal cycle

GSM ID GSM142802

Assay name SS001_ATH1_A5-Smith-5

GSE experiment GSE6174: Gene expression and carbohydrate metabolism through the diurnal cycle