CoP: Co-expressed Biological Processes

Microarray experiments to specifically-expressed genes

GSM ID GSM216888

Assay name ga1-3_shoots_1h_water_repl1

GSE experiment GSE8739: Early gibberellin responses in Arabidopsis

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
64.0 99.8 306.0 At4g21870 828276 26.5 kDa class P-related heat shock protein (HSP26.5-P) F:unknown;P:response to heat;C:cellular_component unknown;PBOFA O.I. C.G. H.G.
35.5 99.7 30.5 At1g70985 843437 hydroxyproline-rich glycoprotein family protein F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PMBFOVA O.I. C.G. H.G.
32.5 99.7 234.2 At1g61800 842477 GPT2 glucose6-Phosphate/phosphate transporter 2 O.I. C.G. H.G.
24.8 99.6 314.3 At3g02480 821185 ABA-responsive protein-related F:molecular_function unknown;P:response to water deprivation;C:cellular_component unknown;PMF O.I. C.G. H.G.
24.0 99.6 32.2 At1g18400 838421 BEE1 (BR Enhanced Expression 1) F:transcription factor activity;P:regulation of transcription;C:nucleus;PFMO O.I. C.G. H.G.
21.6 99.6 36.0 At3g44970 823632 cytochrome P450 family protein F:electron carrier activity, monooxygenase activity, iron ion binding, oxygen binding, heme binding;P:unknown;C:endomembrane system;MPBFOAV O.I. C.G. H.G.
19.9 99.6 55.4 At2g33570 817922 unknown protein F:unknown;P:biological_process unknown;C:cellular_component unknown;PMBOA O.I. C.G. H.G.
19.4 99.6 336.0 At4g28520 828970 CRU3 (CRUCIFERIN 3) Encodes a 12S seed storage protein that is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds. O.I. C.G. H.G.
18.5 99.5 64.2 At1g56430 842096 NAS4 (NICOTIANAMINE SYNTHASE 4) F:nicotianamine synthase activity;P:nicotianamine biosynthetic process;C:cellular_component unknown;PFABO O.I. C.G. H.G.
18.4 99.5 100.9 At1g47400 841144 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
17.0 99.5 31.6 At5g02890 831751 transferase family protein F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PBF O.I. C.G. H.G.
16.9 99.5 65.4 At1g68500 843179 unknown protein F:unknown;P:unknown;C:cellular_component unknown;P O.I. C.G. H.G.
16.9 99.5 13.9 At4g25990 828705 CIL chloroplast import apparatus CIA2-like. CIA2 is a transcription factor which upregulates chloroplast translocon genes O.I. C.G. H.G.
16.5 99.5 57.1 At3g52940 824460 FK (FACKEL) Encodes a sterol C-14 reductase required for cell division and expansion and is involved in proper organization of the embryo. O.I. C.G. H.G.
16.4 99.5 115.7 At1g65840 842894 ATPAO4 (ARABIDOPSIS THALIANA POLYAMINE OXIDASE 4) encodes a peroxisomal polyamine oxidase, involved in the back-conversion polyamine degradation pathway. Among the five polyamine oxidases in the Arabidopsis genome, PAO4 is the major isoform in root peroxisomes. O.I. C.G. H.G.
15.4 99.5 37.0 At5g58900 836007 myb family transcription factor F:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;PMOF O.I. C.G. H.G.
14.2 99.4 71.3 At2g28080 817352 glycosyltransferase family protein F:transferase activity, transferring glycosyl groups;P:metabolic process;C:cellular_component unknown;PMVBOF O.I. C.G. H.G.
13.7 99.4 257.1 At5g44120 834435 CRA1 (CRUCIFERINA) Encodes a 12S seed storage protein. The Landsberg erecta genome contains another copy of 12S globulin gene, CRA2, which is located tandemly with CRA1. Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds. O.I. C.G. H.G.
13.7 99.4 11.7 At3g16360 820883 AHP4 (HPT PHOSPHOTRANSMITTER 4) Encodes AHP4, a histidine-containing phosphotransmitter involved in Histidine (His)-to-Aspartate (Asp) phosphorelay signal transduction. AHP4 is one of the six Arabidopsis thaliana histidine phosphotransfer proteins (AHPs). AHPs function as redundant positive regulators of cytokinin signaling. Members of the AHP gene family include: AT3G21510 (AHP1), AT3G29350 (AHP2), AT5G39340 (AHP3), AT3G16360 (AHP4), AT1G03430 (AHP5) and AT1G80100 (AHP6). O.I. C.G. H.G.
13.5 99.4 87.5 At2g15010 815990 thionin, putative Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant thionin (PR-13) family with the following members: At1g66100, At5g36910, At1g72260, At2g15010, At1g12663, At1g12660. O.I. C.G. H.G.
11.5 99.3 17.7 At4g26150 828721 CGA1 (CYTOKININ-RESPONSIVE GATA FACTOR 1) F:transcription factor activity;P:response to cytokinin stimulus;C:nucleus;FPOM O.I. C.G. H.G.
11.2 99.2 17.5 At3g58790 825048 GAUT15 (Galacturonosyltransferase 15) Encodes a protein with putative galacturonosyltransferase activity. O.I. C.G. H.G.
11.0 99.2 46.9 At4g37540 829909 LBD39 (LOB DOMAIN-CONTAINING PROTEIN 39) F:unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
10.9 99.2 31.6 At5g03700 831753 PAN domain-containing protein F:sugar binding;P:unknown;C:plasma membrane;P O.I. C.G. H.G.
10.8 99.2 83.5 At2g38280 818408 FAC1 (EMBRYONIC FACTOR1) Encodes a protein with in vitro AMP deaminase activity that is involved in embryogenesis. Homozygous mutant embryos fail to develop past the zygote stage. O.I. C.G. H.G.
10.7 99.2 42.5 At3g52950 824461 CBS domain-containing protein / octicosapeptide/Phox/Bemp1 (PB1) domain-containing protein F:unknown;P:unknown;C:chloroplast;BOAPFM O.I. C.G. H.G.
10.6 99.2 90.0 At5g65470 836672 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
9.9 99.1 52.5 At4g14020 827038 rapid alkalinization factor (RALF) family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
9.8 99.1 84.6 At5g66920 836826 sks17 (SKU5 Similar 17) F:oxidoreductase activity, copper ion binding;P:unknown;C:cell wall, plant-type cell wall;FBPMOA O.I. C.G. H.G.
9.5 99.1 65.1 At1g25450 839131 KCS5 (3-KETOACYL-COA SYNTHASE 5) Encodes KCS5, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids). O.I. C.G. H.G.
9.5 99.1 58.3 At2g34510 818014 - F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PB O.I. C.G. H.G.
9.4 99.1 21.0 At1g75310 843868 AUL1 F:heat shock protein binding;P:protein folding;C:unknown;MOBFPVA O.I. C.G. H.G.
9.2 99.1 56.7 At2g42320 818833 nucleolar protein gar2-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVA O.I. C.G. H.G.
9.2 99.1 14.9 At5g20540 832176 ATBRXL4 (BREVIS RADIX-LIKE 4) Belongs to five-member BRX gene family. Arabidopsis BRX genes share high levels of similarity among each others, with several conserved domains. The most distinct is BRX domain - highly conserved in all BRX genes among distantly related species. This protein-protein interaction domain is required and sufficient for BRX activity. O.I. C.G. H.G.
9.2 99.1 7.4 At1g68250 843154 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
9.1 99.1 22.5 At2g19650 816484 DC1 domain-containing protein F:unknown;P:intracellular signaling cascade;C:unknown;POM O.I. C.G. H.G.
9.1 99.1 21.6 At5g40540 834052 protein kinase, putative F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA O.I. C.G. H.G.
9.0 99.1 52.8 At1g15550 838125 GA3OX1 (GIBBERELLIN 3-OXIDASE 1) Involved in later steps of the gibberellic acid biosynthetic pathway. Activated by AGAMOUS in a cal-1, ap1-1 background. Deletion of 208 bp from -1016 to -809 (Δ-808) resulted in loss of GA-negative feedback (this sequence, which contains a 43-bp sequence GNFEI, was shown to be sufficient for GA-negative feedback). O.I. C.G. H.G.
9.0 99.1 43.2 At1g78170 844153 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. C.G. H.G.
8.9 99.0 41.1 At2g46630 3768746 unknown protein F:unknown;P:unknown;C:chloroplast O.I. C.G. H.G.
8.7 99.0 75.6 At4g05390 825887 ATRFNR1 (ROOT FNR 1) Encodes a root-type ferredoxin:NADP(H) oxidoreductase. 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.
64.0	99.8	306.0	At4g21870	828276	26.5 kDa class P-related heat shock protein (HSP26.5-P)	F:unknown;P:response to heat;C:cellular_component unknown;PBOFA	O.I.	C.G.	H.G.
35.5	99.7	30.5	At1g70985	843437	hydroxyproline-rich glycoprotein family protein	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PMBFOVA	O.I.	C.G.	H.G.
32.5	99.7	234.2	At1g61800	842477	GPT2	glucose6-Phosphate/phosphate transporter 2	O.I.	C.G.	H.G.
24.8	99.6	314.3	At3g02480	821185	ABA-responsive protein-related	F:molecular_function unknown;P:response to water deprivation;C:cellular_component unknown;PMF	O.I.	C.G.	H.G.
24.0	99.6	32.2	At1g18400	838421	BEE1 (BR Enhanced Expression 1)	F:transcription factor activity;P:regulation of transcription;C:nucleus;PFMO	O.I.	C.G.	H.G.
21.6	99.6	36.0	At3g44970	823632	cytochrome P450 family protein	F:electron carrier activity, monooxygenase activity, iron ion binding, oxygen binding, heme binding;P:unknown;C:endomembrane system;MPBFOAV	O.I.	C.G.	H.G.
19.9	99.6	55.4	At2g33570	817922	unknown protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;PMBOA	O.I.	C.G.	H.G.
19.4	99.6	336.0	At4g28520	828970	CRU3 (CRUCIFERIN 3)	Encodes a 12S seed storage protein that is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.	O.I.	C.G.	H.G.
18.5	99.5	64.2	At1g56430	842096	NAS4 (NICOTIANAMINE SYNTHASE 4)	F:nicotianamine synthase activity;P:nicotianamine biosynthetic process;C:cellular_component unknown;PFABO	O.I.	C.G.	H.G.
18.4	99.5	100.9	At1g47400	841144	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
17.0	99.5	31.6	At5g02890	831751	transferase family protein	F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PBF	O.I.	C.G.	H.G.
16.9	99.5	65.4	At1g68500	843179	unknown protein	F:unknown;P:unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
16.9	99.5	13.9	At4g25990	828705	CIL	chloroplast import apparatus CIA2-like. CIA2 is a transcription factor which upregulates chloroplast translocon genes	O.I.	C.G.	H.G.
16.5	99.5	57.1	At3g52940	824460	FK (FACKEL)	Encodes a sterol C-14 reductase required for cell division and expansion and is involved in proper organization of the embryo.	O.I.	C.G.	H.G.
16.4	99.5	115.7	At1g65840	842894	ATPAO4 (ARABIDOPSIS THALIANA POLYAMINE OXIDASE 4)	encodes a peroxisomal polyamine oxidase, involved in the back-conversion polyamine degradation pathway. Among the five polyamine oxidases in the Arabidopsis genome, PAO4 is the major isoform in root peroxisomes.	O.I.	C.G.	H.G.
15.4	99.5	37.0	At5g58900	836007	myb family transcription factor	F:transcription factor activity, DNA binding;P:regulation of transcription;C:unknown;PMOF	O.I.	C.G.	H.G.
14.2	99.4	71.3	At2g28080	817352	glycosyltransferase family protein	F:transferase activity, transferring glycosyl groups;P:metabolic process;C:cellular_component unknown;PMVBOF	O.I.	C.G.	H.G.
13.7	99.4	257.1	At5g44120	834435	CRA1 (CRUCIFERINA)	Encodes a 12S seed storage protein. The Landsberg erecta genome contains another copy of 12S globulin gene, CRA2, which is located tandemly with CRA1. Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.	O.I.	C.G.	H.G.
13.7	99.4	11.7	At3g16360	820883	AHP4 (HPT PHOSPHOTRANSMITTER 4)	Encodes AHP4, a histidine-containing phosphotransmitter involved in Histidine (His)-to-Aspartate (Asp) phosphorelay signal transduction. AHP4 is one of the six Arabidopsis thaliana histidine phosphotransfer proteins (AHPs). AHPs function as redundant positive regulators of cytokinin signaling. Members of the AHP gene family include: AT3G21510 (AHP1), AT3G29350 (AHP2), AT5G39340 (AHP3), AT3G16360 (AHP4), AT1G03430 (AHP5) and AT1G80100 (AHP6).	O.I.	C.G.	H.G.
13.5	99.4	87.5	At2g15010	815990	thionin, putative	Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant thionin (PR-13) family with the following members: At1g66100, At5g36910, At1g72260, At2g15010, At1g12663, At1g12660.	O.I.	C.G.	H.G.
11.5	99.3	17.7	At4g26150	828721	CGA1 (CYTOKININ-RESPONSIVE GATA FACTOR 1)	F:transcription factor activity;P:response to cytokinin stimulus;C:nucleus;FPOM	O.I.	C.G.	H.G.
11.2	99.2	17.5	At3g58790	825048	GAUT15 (Galacturonosyltransferase 15)	Encodes a protein with putative galacturonosyltransferase activity.	O.I.	C.G.	H.G.
11.0	99.2	46.9	At4g37540	829909	LBD39 (LOB DOMAIN-CONTAINING PROTEIN 39)	F:unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
10.9	99.2	31.6	At5g03700	831753	PAN domain-containing protein	F:sugar binding;P:unknown;C:plasma membrane;P	O.I.	C.G.	H.G.
10.8	99.2	83.5	At2g38280	818408	FAC1 (EMBRYONIC FACTOR1)	Encodes a protein with in vitro AMP deaminase activity that is involved in embryogenesis. Homozygous mutant embryos fail to develop past the zygote stage.	O.I.	C.G.	H.G.
10.7	99.2	42.5	At3g52950	824461	CBS domain-containing protein / octicosapeptide/Phox/Bemp1 (PB1) domain-containing protein	F:unknown;P:unknown;C:chloroplast;BOAPFM	O.I.	C.G.	H.G.
10.6	99.2	90.0	At5g65470	836672	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
9.9	99.1	52.5	At4g14020	827038	rapid alkalinization factor (RALF) family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
9.8	99.1	84.6	At5g66920	836826	sks17 (SKU5 Similar 17)	F:oxidoreductase activity, copper ion binding;P:unknown;C:cell wall, plant-type cell wall;FBPMOA	O.I.	C.G.	H.G.
9.5	99.1	65.1	At1g25450	839131	KCS5 (3-KETOACYL-COA SYNTHASE 5)	Encodes KCS5, a member of the 3-ketoacyl-CoA synthase family involved in the biosynthesis of VLCFA (very long chain fatty acids).	O.I.	C.G.	H.G.
9.5	99.1	58.3	At2g34510	818014	-	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;PB	O.I.	C.G.	H.G.
9.4	99.1	21.0	At1g75310	843868	AUL1	F:heat shock protein binding;P:protein folding;C:unknown;MOBFPVA	O.I.	C.G.	H.G.
9.2	99.1	56.7	At2g42320	818833	nucleolar protein gar2-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BMOFPVA	O.I.	C.G.	H.G.
9.2	99.1	14.9	At5g20540	832176	ATBRXL4 (BREVIS RADIX-LIKE 4)	Belongs to five-member BRX gene family. Arabidopsis BRX genes share high levels of similarity among each others, with several conserved domains. The most distinct is BRX domain - highly conserved in all BRX genes among distantly related species. This protein-protein interaction domain is required and sufficient for BRX activity.	O.I.	C.G.	H.G.
9.2	99.1	7.4	At1g68250	843154	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
9.1	99.1	22.5	At2g19650	816484	DC1 domain-containing protein	F:unknown;P:intracellular signaling cascade;C:unknown;POM	O.I.	C.G.	H.G.
9.1	99.1	21.6	At5g40540	834052	protein kinase, putative	F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA	O.I.	C.G.	H.G.
9.0	99.1	52.8	At1g15550	838125	GA3OX1 (GIBBERELLIN 3-OXIDASE 1)	Involved in later steps of the gibberellic acid biosynthetic pathway. Activated by AGAMOUS in a cal-1, ap1-1 background. Deletion of 208 bp from -1016 to -809 (Δ-808) resulted in loss of GA-negative feedback (this sequence, which contains a 43-bp sequence GNFEI, was shown to be sufficient for GA-negative feedback).	O.I.	C.G.	H.G.
9.0	99.1	43.2	At1g78170	844153	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	C.G.	H.G.
8.9	99.0	41.1	At2g46630	3768746	unknown protein	F:unknown;P:unknown;C:chloroplast	O.I.	C.G.	H.G.
8.7	99.0	75.6	At4g05390	825887	ATRFNR1 (ROOT FNR 1)	Encodes a root-type ferredoxin:NADP(H) oxidoreductase.	O.I.	C.G.	H.G.

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GSM ID	GSM216888
Assay name	ga1-3_shoots_1h_water_repl1
GSE experiment	GSE8739: Early gibberellin responses in Arabidopsis

Microarray experiments to specifically-expressed genes

GSM ID GSM216888 Assay name ga1-3_shoots_1h_water_repl1 GSE experiment GSE8739: Early gibberellin responses in Arabidopsis

GSM ID GSM216888

Assay name ga1-3_shoots_1h_water_repl1

GSE experiment GSE8739: Early gibberellin responses in Arabidopsis