CoP: Co-expressed Biological Processes

Specifically-expressed experiments

Gene ID At5g05690

Gene name CPD (CONSTITUTIVE PHOTOMORPHOGENIC DWARF)

Functional description Encodes a member of the CP90A family, a cytochrome P450 monooxygenase which converts 6-deoxocathasterone to 6-deoxoteasterone in the late C6 oxidation pathway and cathasterone to teasterone in the early C6 oxidation pathway of brassinolide biosynthesis. Expressed in cotyledons and leaves. Mutants display de-etiolation and derepression of light-induced genes in the dark, dwarfism, male sterility and activation of stress-regulated genes in the light. The expression of the gene using a CPD promoter:LUC fusion construct was shown to be under circadian and light control. Additionally, the circadian regulation was shown to be independent of BR levels as it remains unchanged in bri1 mutant lines. CPD appears to be involved in the autonomous pathway that regulates the transition to flowering, primarily through a BRI1-mediated signaling pathway that affects FLC expression levels, as uncovered by double mutant analyses.

Click GSM ID or Assay name to show a list of genes that are specifically expressed in the GSM.

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
30.9 99.7 GSM253165 48h into an extended nightB GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
20.3 99.6 GSM253163 24h into an extended nightB GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
18.5 99.5 GSM253166 48h into an extended nightC GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
16.4 99.5 GSM128667 Underwood_1-20_Mock-Inoculum-10h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
15.4 99.5 GSM128659 Underwood_1-12_Mock-Inoculum-24h_Rep3_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
15.3 99.4 GSM253164 24h into an extended nightC GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
15.3 99.4 GSM282703 arf2_brz_2 GSE11216 Brassinazole treatment of arf2 and wild-type dark-grown seedlings
15.0 99.4 GSM128650 Underwood_1-3_Cor-10e6-24h_Rep3_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
14.5 99.4 ArrayExpress E-MEXP-1443-raw-cel-1581869515 - - -
14.0 99.4 GSM253162 8h into an extended nightB GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
13.8 99.4 GSM128653 Underwood_1-6_Cor-hrpS-10e6-24h_Rep3_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
13.5 99.4 ArrayExpress E-ATMX-6-raw-cel-1308219121 - - -
13.2 99.4 GSM282693 arf2_brz_1 GSE11216 Brassinazole treatment of arf2 and wild-type dark-grown seedlings
13.0 99.4 ArrayExpress E-MEXP-1299-raw-cel-1519903415 - - -
12.9 99.3 ArrayExpress Rente_1-3_WS2-Control_Rep1_ATH1 - - -
12.6 99.3 GSM282699 Col_BRZ_rep3 GSE11216 Brassinazole treatment of arf2 and wild-type dark-grown seedlings
12.4 99.3 ArrayExpress E-MEXP-1304-raw-cel-1530619577 - - -
12.3 99.3 ArrayExpress Rente_1-4_KKO-Control_Rep1_ATH1 - - -
11.9 99.3 GSM128658 Underwood_1-11_Mock-Inoculum-24h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.7 99.3 GSM128652 Underwood_1-5_Cor-hrpS-10e6-24h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.6 99.3 GSM282697 Col_BRZ_rep1 GSE11216 Brassinazole treatment of arf2 and wild-type dark-grown seedlings
11.4 99.3 ArrayExpress E-MEXP-1299-raw-cel-1519902498 - - -
11.0 99.2 GSM173451 oxt6:AtCPSF30 line 6, biological rep2 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
10.8 99.2 GSM128651 Underwood_1-4_Cor-hrpS-10e6-24h_Rep1_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.8 99.2 GSM173450 oxt6:AtCPSF30 line 6, biological rep1 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
10.7 99.2 ArrayExpress E-MEXP-1468-raw-cel-1591138919 - - -
10.6 99.2 ArrayExpress E-MEXP-838-raw-cel-1160703895 - - -
10.6 99.2 ArrayExpress E-MEXP-838-raw-cel-1160703990 - - -
10.5 99.2 GSM253160 6h into an extended night GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
10.4 99.2 GSM292076 Wt, dark sample, biological rep1 GSE11594 Expression data from dark grown Arabidopsis Wild type (Wt, col-o) and pif1-2 (At2g20810, Salk_072677) mutant seedlings
10.3 99.2 GSM128655 Underwood_1-8_DC3000-10e6-24h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.2 99.2 GSM253161 8h into an extended nightA GSE10016 Expression data of Arabidopsis thaliana rosettes in an extended night
10.2 99.2 ArrayExpress E-MEXP-838-raw-cel-1160704054 - - -
10.1 99.2 GSM40553 Total RNA - hypoxia stress GSE2218 Changes in transcript abundance and association with large polysomes in response to hypoxia stress
10.0 99.2 GSM128649 Underwood_1-2_Cor-10e6-24h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
9.7 99.1 ArrayExpress E-ATMX-6-raw-cel-1308219150 - - -
9.5 99.1 GSM128665 Underwood_1-17_Cor-hrpS-5x10e7-10h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
9.2 99.1 GSM67112 Arabidopsis_Seedling04 GSE3056 Arabidopsis Pollination Study
8.9 99.0 GSM128666 Underwood_1-19_Mock-Inoculum-10h_Rep1_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.9 99.0 ArrayExpress E-MEXP-1468-raw-cel-1591138820 - - -

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
30.9	99.7	GSM253165	48h into an extended nightB	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
20.3	99.6	GSM253163	24h into an extended nightB	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
18.5	99.5	GSM253166	48h into an extended nightC	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
16.4	99.5	GSM128667	Underwood_1-20_Mock-Inoculum-10h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
15.4	99.5	GSM128659	Underwood_1-12_Mock-Inoculum-24h_Rep3_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
15.3	99.4	GSM253164	24h into an extended nightC	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
15.3	99.4	GSM282703	arf2_brz_2	GSE11216	Brassinazole treatment of arf2 and wild-type dark-grown seedlings
15.0	99.4	GSM128650	Underwood_1-3_Cor-10e6-24h_Rep3_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
14.5	99.4	ArrayExpress	E-MEXP-1443-raw-cel-1581869515	-	-	-
14.0	99.4	GSM253162	8h into an extended nightB	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
13.8	99.4	GSM128653	Underwood_1-6_Cor-hrpS-10e6-24h_Rep3_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
13.5	99.4	ArrayExpress	E-ATMX-6-raw-cel-1308219121	-	-	-
13.2	99.4	GSM282693	arf2_brz_1	GSE11216	Brassinazole treatment of arf2 and wild-type dark-grown seedlings
13.0	99.4	ArrayExpress	E-MEXP-1299-raw-cel-1519903415	-	-	-
12.9	99.3	ArrayExpress	Rente_1-3_WS2-Control_Rep1_ATH1	-	-	-
12.6	99.3	GSM282699	Col_BRZ_rep3	GSE11216	Brassinazole treatment of arf2 and wild-type dark-grown seedlings
12.4	99.3	ArrayExpress	E-MEXP-1304-raw-cel-1530619577	-	-	-
12.3	99.3	ArrayExpress	Rente_1-4_KKO-Control_Rep1_ATH1	-	-	-
11.9	99.3	GSM128658	Underwood_1-11_Mock-Inoculum-24h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.7	99.3	GSM128652	Underwood_1-5_Cor-hrpS-10e6-24h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
11.6	99.3	GSM282697	Col_BRZ_rep1	GSE11216	Brassinazole treatment of arf2 and wild-type dark-grown seedlings
11.4	99.3	ArrayExpress	E-MEXP-1299-raw-cel-1519902498	-	-	-
11.0	99.2	GSM173451	oxt6:AtCPSF30 line 6, biological rep2	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
10.8	99.2	GSM128651	Underwood_1-4_Cor-hrpS-10e6-24h_Rep1_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.8	99.2	GSM173450	oxt6:AtCPSF30 line 6, biological rep1	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
10.7	99.2	ArrayExpress	E-MEXP-1468-raw-cel-1591138919	-	-	-
10.6	99.2	ArrayExpress	E-MEXP-838-raw-cel-1160703895	-	-	-
10.6	99.2	ArrayExpress	E-MEXP-838-raw-cel-1160703990	-	-	-
10.5	99.2	GSM253160	6h into an extended night	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
10.4	99.2	GSM292076	Wt, dark sample, biological rep1	GSE11594	Expression data from dark grown Arabidopsis Wild type (Wt, col-o) and pif1-2 (At2g20810, Salk_072677) mutant seedlings
10.3	99.2	GSM128655	Underwood_1-8_DC3000-10e6-24h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.2	99.2	GSM253161	8h into an extended nightA	GSE10016	Expression data of Arabidopsis thaliana rosettes in an extended night
10.2	99.2	ArrayExpress	E-MEXP-838-raw-cel-1160704054	-	-	-
10.1	99.2	GSM40553	Total RNA - hypoxia stress	GSE2218	Changes in transcript abundance and association with large polysomes in response to hypoxia stress
10.0	99.2	GSM128649	Underwood_1-2_Cor-10e6-24h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
9.7	99.1	ArrayExpress	E-ATMX-6-raw-cel-1308219150	-	-	-
9.5	99.1	GSM128665	Underwood_1-17_Cor-hrpS-5x10e7-10h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
9.2	99.1	GSM67112	Arabidopsis_Seedling04	GSE3056	Arabidopsis Pollination Study
8.9	99.0	GSM128666	Underwood_1-19_Mock-Inoculum-10h_Rep1_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.9	99.0	ArrayExpress	E-MEXP-1468-raw-cel-1591138820	-	-	-

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Gene ID	At5g05690
Gene name	CPD (CONSTITUTIVE PHOTOMORPHOGENIC DWARF)
Functional description	Encodes a member of the CP90A family, a cytochrome P450 monooxygenase which converts 6-deoxocathasterone to 6-deoxoteasterone in the late C6 oxidation pathway and cathasterone to teasterone in the early C6 oxidation pathway of brassinolide biosynthesis. Expressed in cotyledons and leaves. Mutants display de-etiolation and derepression of light-induced genes in the dark, dwarfism, male sterility and activation of stress-regulated genes in the light. The expression of the gene using a CPD promoter:LUC fusion construct was shown to be under circadian and light control. Additionally, the circadian regulation was shown to be independent of BR levels as it remains unchanged in bri1 mutant lines. CPD appears to be involved in the autonomous pathway that regulates the transition to flowering, primarily through a BRI1-mediated signaling pathway that affects FLC expression levels, as uncovered by double mutant analyses.