CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM131472

Assay name ATGE_7_B2

GSE experiment GSE5629: AtGenExpress: Developmental series (seedlings and whole plants)

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
70.0 99.9 35.0 At1g31680 - - O.I. C.G. H.G.
24.0 99.6 40.5 At4g34830 829635 - F:unknown;P:unknown;C:chloroplast;POMFBA O.I. C.G. H.G.
22.4 99.6 58.0 At1g31690 840056 amine oxidase/ copper ion binding / quinone binding F:quinone binding, amine oxidase activity, copper ion binding;P:cellular amine metabolic process;C:endomembrane system;FBMOPA O.I. C.G. H.G.
14.3 99.4 49.5 At3g48110 823966 EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1) glycine-tRNA ligase O.I. C.G. H.G.
14.0 99.4 34.5 At5g63420 836461 emb2746 (embryo defective 2746) F:hydrolase activity, DNA binding, catalytic activity;P:embryonic development ending in seed dormancy, metabolic process;C:chloroplast;OBMAPFV O.I. C.G. H.G.
13.5 99.4 34.5 At3g04340 819589 emb2458 (embryo defective 2458) F:nucleoside-triphosphatase activity, ATPase activity, metalloendopeptidase activity, nucleotide binding, ATP binding;P:embryonic development ending in seed dormancy;C:chloroplast, chloroplast envelope;OBMFPAV O.I. C.G. H.G.
11.6 99.3 82.7 At1g01320 839293 tetratricopeptide repeat (TPR)-containing protein F:binding;P:unknown;C:cellular_component unknown;MBFOPAV O.I. C.G. H.G.
11.5 99.3 16.5 At2g15820 816078 OTP51 (ORGANELLE TRANSCRIPT PROCESSING 51) Encodes a protein that promotes splicing of type II introns. otp51 mutants fail to splice intron 2 of plastid ycf3 transcripts, a factor required for the assembly of Photosystem I. Therefore, homozygous otp51 mutants have profound photosynthetic defects and can only survive in sucrose-supplemented in vitro cultures under low light conditions. OTP51 may also be involved in splicing several other transcripts and precursor forms of the trnL, trnG, trnI, and trnA transcripts also accumulate in otp51 mutants. Although OTP51 shares some homology with DNA endonucleases, it lacks key catalytic residues suggesting that it does not participate in DNA cleavage. O.I. C.G. H.G.
11.2 99.2 64.8 At3g59780 825147 - F:molecular_function unknown;P:biological_process unknown;C:nucleus, chloroplast;OBMFPV O.I. C.G. H.G.
10.9 99.2 192.4 At4g29060 829027 emb2726 (embryo defective 2726) F:RNA binding, translation elongation factor activity;P:embryonic development ending in seed dormancy, translational elongation, response to cadmium ion;C:chloroplast stroma, chloroplast, chloroplast envelope;BOMFPAV O.I. C.G. H.G.
10.9 99.2 69.7 At5g55220 835615 trigger factor type chaperone family protein F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding, protein transport;C:chloroplast, chloroplast stroma, chloroplast envelope;BOMPFV O.I. C.G. H.G.
10.9 99.2 34.2 At3g03710 821181 RIF10 (resistant to inhibition with FSM 10) Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings. O.I. C.G. H.G.
10.7 99.2 30.9 At5g02830 831772 pentatricopeptide (PPR) repeat-containing protein F:unknown;P:biological_process unknown;C:chloroplast;POMFBA O.I. C.G. H.G.
10.2 99.2 219.6 At3g13470 820549 chaperonin, putative F:protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:in 7 components;BOMFPAV O.I. C.G. H.G.
10.1 99.2 7.3 At4g00640 - - O.I. C.G. H.G.
10.0 99.2 145.3 At4g28080 828923 binding F:binding;P:unknown;C:unknown;MBFOPAV O.I. C.G. H.G.
10.0 99.2 39.0 At1g65060 842814 4CL3 encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. mRNA levels are not induced in response to wounding or to fungal infection by P. parasitica. mRNA is expressed in flowers, to a lesser degree in mature leaves and siliques and marginally in seedling roots and bolting stems of mature plants. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, ferulic acid, cinnamic acid and 5-OH-ferulic acid. At4CL3 was unable to use sinapic acid as substrate. O.I. C.G. H.G.
9.7 99.1 46.1 At5g49030 834962 OVA2 (ovule abortion 2) F:nucleotide binding, isoleucine-tRNA ligase activity, aminoacyl-tRNA ligase activity, catalytic activity, ATP binding;P:ovule development, tRNA aminoacylation for protein translation;C:chloroplast;OBMAFP O.I. C.G. H.G.
9.6 99.1 28.5 At1g23205 838929 invertase/pectin methylesterase inhibitor family protein F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P O.I. C.G. H.G.
9.5 99.1 79.6 At2g47590 819372 PHR2 (photolyase/blue-light receptor 2) photolyase/blue light photoreceptor PHR2 (PHR2) mRNA, O.I. C.G. H.G.
9.5 99.1 68.8 At5g51820 835257 PGM (PHOSPHOGLUCOMUTASE) Encodes a plastid isoform of the enzyme phosphoglucomutase involved in controlling photosynthetic carbon flow. Effective petiole movement against the direction of the gravity requires functional PGM activity that is required for full development of amyloplasts. O.I. C.G. H.G.
9.4 99.1 44.5 At1g56050 842056 GTP-binding protein-related F:GTP binding;P:biological_process unknown;C:chloroplast, chloroplast stroma;OBMFAP O.I. C.G. H.G.
9.3 99.1 10.3 At2g31150 817671 ATP binding / ATPase, coupled to transmembrane movement of ions, phosphorylative mechanism F:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism, ATP binding;P:ATP biosynthetic process;C:membrane;OMBFPVA O.I. C.G. H.G.
8.9 99.0 51.3 At3g18390 821368 EMB1865 (embryo defective 1865) F:RNA binding;P:embryonic development ending in seed dormancy;C:chloroplast;OPMFVBA O.I. C.G. H.G.
8.9 99.0 13.0 At3g29590 822623 AT5MAT At3g29590 (At5MAT) encodes a malonyl-CoA:anthocyanidin 5-O-glucoside-6"-O-malonyltransferase that is coordinately expressed with a epistatic 5-O-anthocyanidin glucosyltransferase (At4g14090). The enzyme is involved in the malonylation of anthocyanins in Arabidopsis. O.I. C.G. H.G.
8.8 99.0 36.7 At1g60590 842353 polygalacturonase, putative / pectinase, putative F:polygalacturonase activity;P:carbohydrate metabolic process;C:unknown;FPBMOVA O.I. C.G. H.G.
8.7 99.0 56.2 At4g16155 827307 dihydrolipoyl dehydrogenase F:dihydrolipoyl dehydrogenase activity;P:cell redox homeostasis;C:chloroplast, chloroplast envelope;BOMAPF 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.
70.0	99.9	35.0	At1g31680		-	-	O.I.	C.G.	H.G.
24.0	99.6	40.5	At4g34830	829635	-	F:unknown;P:unknown;C:chloroplast;POMFBA	O.I.	C.G.	H.G.
22.4	99.6	58.0	At1g31690	840056	amine oxidase/ copper ion binding / quinone binding	F:quinone binding, amine oxidase activity, copper ion binding;P:cellular amine metabolic process;C:endomembrane system;FBMOPA	O.I.	C.G.	H.G.
14.3	99.4	49.5	At3g48110	823966	EDD1 (EMBRYO-DEFECTIVE-DEVELOPMENT 1)	glycine-tRNA ligase	O.I.	C.G.	H.G.
14.0	99.4	34.5	At5g63420	836461	emb2746 (embryo defective 2746)	F:hydrolase activity, DNA binding, catalytic activity;P:embryonic development ending in seed dormancy, metabolic process;C:chloroplast;OBMAPFV	O.I.	C.G.	H.G.
13.5	99.4	34.5	At3g04340	819589	emb2458 (embryo defective 2458)	F:nucleoside-triphosphatase activity, ATPase activity, metalloendopeptidase activity, nucleotide binding, ATP binding;P:embryonic development ending in seed dormancy;C:chloroplast, chloroplast envelope;OBMFPAV	O.I.	C.G.	H.G.
11.6	99.3	82.7	At1g01320	839293	tetratricopeptide repeat (TPR)-containing protein	F:binding;P:unknown;C:cellular_component unknown;MBFOPAV	O.I.	C.G.	H.G.
11.5	99.3	16.5	At2g15820	816078	OTP51 (ORGANELLE TRANSCRIPT PROCESSING 51)	Encodes a protein that promotes splicing of type II introns. otp51 mutants fail to splice intron 2 of plastid ycf3 transcripts, a factor required for the assembly of Photosystem I. Therefore, homozygous otp51 mutants have profound photosynthetic defects and can only survive in sucrose-supplemented in vitro cultures under low light conditions. OTP51 may also be involved in splicing several other transcripts and precursor forms of the trnL, trnG, trnI, and trnA transcripts also accumulate in otp51 mutants. Although OTP51 shares some homology with DNA endonucleases, it lacks key catalytic residues suggesting that it does not participate in DNA cleavage.	O.I.	C.G.	H.G.
11.2	99.2	64.8	At3g59780	825147	-	F:molecular_function unknown;P:biological_process unknown;C:nucleus, chloroplast;OBMFPV	O.I.	C.G.	H.G.
10.9	99.2	192.4	At4g29060	829027	emb2726 (embryo defective 2726)	F:RNA binding, translation elongation factor activity;P:embryonic development ending in seed dormancy, translational elongation, response to cadmium ion;C:chloroplast stroma, chloroplast, chloroplast envelope;BOMFPAV	O.I.	C.G.	H.G.
10.9	99.2	69.7	At5g55220	835615	trigger factor type chaperone family protein	F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding, protein transport;C:chloroplast, chloroplast stroma, chloroplast envelope;BOMPFV	O.I.	C.G.	H.G.
10.9	99.2	34.2	At3g03710	821181	RIF10 (resistant to inhibition with FSM 10)	Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings.	O.I.	C.G.	H.G.
10.7	99.2	30.9	At5g02830	831772	pentatricopeptide (PPR) repeat-containing protein	F:unknown;P:biological_process unknown;C:chloroplast;POMFBA	O.I.	C.G.	H.G.
10.2	99.2	219.6	At3g13470	820549	chaperonin, putative	F:protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:in 7 components;BOMFPAV	O.I.	C.G.	H.G.
10.1	99.2	7.3	At4g00640		-	-	O.I.	C.G.	H.G.
10.0	99.2	145.3	At4g28080	828923	binding	F:binding;P:unknown;C:unknown;MBFOPAV	O.I.	C.G.	H.G.
10.0	99.2	39.0	At1g65060	842814	4CL3	encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. mRNA levels are not induced in response to wounding or to fungal infection by P. parasitica. mRNA is expressed in flowers, to a lesser degree in mature leaves and siliques and marginally in seedling roots and bolting stems of mature plants. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, ferulic acid, cinnamic acid and 5-OH-ferulic acid. At4CL3 was unable to use sinapic acid as substrate.	O.I.	C.G.	H.G.
9.7	99.1	46.1	At5g49030	834962	OVA2 (ovule abortion 2)	F:nucleotide binding, isoleucine-tRNA ligase activity, aminoacyl-tRNA ligase activity, catalytic activity, ATP binding;P:ovule development, tRNA aminoacylation for protein translation;C:chloroplast;OBMAFP	O.I.	C.G.	H.G.
9.6	99.1	28.5	At1g23205	838929	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P	O.I.	C.G.	H.G.
9.5	99.1	79.6	At2g47590	819372	PHR2 (photolyase/blue-light receptor 2)	photolyase/blue light photoreceptor PHR2 (PHR2) mRNA,	O.I.	C.G.	H.G.
9.5	99.1	68.8	At5g51820	835257	PGM (PHOSPHOGLUCOMUTASE)	Encodes a plastid isoform of the enzyme phosphoglucomutase involved in controlling photosynthetic carbon flow. Effective petiole movement against the direction of the gravity requires functional PGM activity that is required for full development of amyloplasts.	O.I.	C.G.	H.G.
9.4	99.1	44.5	At1g56050	842056	GTP-binding protein-related	F:GTP binding;P:biological_process unknown;C:chloroplast, chloroplast stroma;OBMFAP	O.I.	C.G.	H.G.
9.3	99.1	10.3	At2g31150	817671	ATP binding / ATPase, coupled to transmembrane movement of ions, phosphorylative mechanism	F:ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism, ATP binding;P:ATP biosynthetic process;C:membrane;OMBFPVA	O.I.	C.G.	H.G.
8.9	99.0	51.3	At3g18390	821368	EMB1865 (embryo defective 1865)	F:RNA binding;P:embryonic development ending in seed dormancy;C:chloroplast;OPMFVBA	O.I.	C.G.	H.G.
8.9	99.0	13.0	At3g29590	822623	AT5MAT	At3g29590 (At5MAT) encodes a malonyl-CoA:anthocyanidin 5-O-glucoside-6"-O-malonyltransferase that is coordinately expressed with a epistatic 5-O-anthocyanidin glucosyltransferase (At4g14090). The enzyme is involved in the malonylation of anthocyanins in Arabidopsis.	O.I.	C.G.	H.G.
8.8	99.0	36.7	At1g60590	842353	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:unknown;FPBMOVA	O.I.	C.G.	H.G.
8.7	99.0	56.2	At4g16155	827307	dihydrolipoyl dehydrogenase	F:dihydrolipoyl dehydrogenase activity;P:cell redox homeostasis;C:chloroplast, chloroplast envelope;BOMAPF	O.I.	C.G.	H.G.

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GSM ID	GSM131472
Assay name	ATGE_7_B2
GSE experiment	GSE5629: AtGenExpress: Developmental series (seedlings and whole plants)

Microarray experiments to specifically-expressed genes

GSM ID GSM131472 Assay name ATGE_7_B2 GSE experiment GSE5629: AtGenExpress: Developmental series (seedlings and whole plants)

GSM ID GSM131472

Assay name ATGE_7_B2

GSE experiment GSE5629: AtGenExpress: Developmental series (seedlings and whole plants)