CoP: Co-expressed Biological Processes

Specifically-expressed experiments

Gene ID At3g59030

Gene name TT12 (TRANSPARENT TESTA 12)

Functional description Encodes a proton antiporter. Involved in the transportation of proanthocyanidin precursors into the vacuole. In vitro transport experiments showed that cyanidin-3-O-glucoside (anthocyanin) was an effective substrate, whereas the proanthocyanidin precursor epicatechin was not transported. However catechin-3-O-glucoside inhibited anthocyanin transport in a dose-dependent manner suggesting that glycosylated epicatechin is the in vivo substrate. Recessive mutation has strong reduction of proanthocyanidin deposition in vacuoles and has reduced dormancy. Expressed in the endothelium of ovules and developing seeds.

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
574.9 100.0 GSM147966 lec1-1 Globular Stage Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
500.0 100.0 GSM147964 WT Globular Stage Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
448.2 100.0 GSM147963 WT Globular Stage Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
350.5 100.0 GSM147965 lec1-1 Globular Stage Seed 1 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
165.2 100.0 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
122.0 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
112.9 99.9 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
111.2 99.9 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
101.8 99.9 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
98.1 99.9 GSM284398 Arabidopsis GGSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
91.8 99.9 GSM284397 Arabidopsis GGSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
82.6 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
70.2 99.9 GSM311284 Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
69.3 99.9 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.0 99.8 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.4 99.8 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
61.3 99.8 GSM311282 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
53.9 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
52.7 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.0 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.4 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
42.6 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.6 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.6 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.7 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.6 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.1 99.8 GSM10480 lec1-1 Cotyledon Stage Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
37.9 99.8 GSM10479 lec1-1 Cotyledon Stage Seed 1 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
37.8 99.8 GSM131685 ATGE_76_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
37.6 99.7 GSM131686 ATGE_76_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
36.7 99.7 GSM131687 ATGE_76_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
35.8 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.4 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.1 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.2 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.4 99.6 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.4 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.9 99.6 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.6 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
20.0 99.6 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
20.0 99.6 ArrayExpress E-MEXP-1451-raw-cel-1585200170 - - -
18.8 99.5 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
18.7 99.5 ArrayExpress E-MEXP-1451-raw-cel-1585200202 - - -
17.2 99.5 GSM133820 Yang_1-5_young-pod_Rep3_ATH1 GSE5736 To identify changes in gene expression during silique senescence in Arabidopsis thaliana
15.7 99.5 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
15.3 99.4 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.6 99.4 GSM311285 Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
14.3 99.4 GSM311283 Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
14.0 99.4 ArrayExpress E-MEXP-1451-raw-cel-1585200234 - - -
12.8 99.3 GSM10448 WT Cotyledon Stage Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
11.8 99.3 GSM176878 AWP_AL_Txed_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
10.8 99.2 GSM10449 WT Cotyledon Stage Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
10.4 99.2 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.8 99.1 GSM131106 Broadley_1-4_A4-Bo-P3-phosphate-starved_Rep3_ATH1 GSE5614 Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
9.6 99.1 GSM176880 AWP_Control_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
574.9	100.0	GSM147966	lec1-1 Globular Stage Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
500.0	100.0	GSM147964	WT Globular Stage Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
448.2	100.0	GSM147963	WT Globular Stage Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
350.5	100.0	GSM147965	lec1-1 Globular Stage Seed 1	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
165.2	100.0	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
122.0	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
112.9	99.9	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
111.2	99.9	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
101.8	99.9	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
98.1	99.9	GSM284398	Arabidopsis GGSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
91.8	99.9	GSM284397	Arabidopsis GGSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
82.6	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
70.2	99.9	GSM311284	Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
69.3	99.9	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.0	99.8	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.4	99.8	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
61.3	99.8	GSM311282	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
53.9	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
52.7	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.0	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.4	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
42.6	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.6	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.6	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.7	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.6	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.1	99.8	GSM10480	lec1-1 Cotyledon Stage Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
37.9	99.8	GSM10479	lec1-1 Cotyledon Stage Seed 1	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
37.8	99.8	GSM131685	ATGE_76_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
37.6	99.7	GSM131686	ATGE_76_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
36.7	99.7	GSM131687	ATGE_76_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
35.8	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.4	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.8	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.1	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.2	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.4	99.6	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.4	99.6	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.9	99.6	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.6	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.0	99.6	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
20.0	99.6	ArrayExpress	E-MEXP-1451-raw-cel-1585200170	-	-	-
18.8	99.5	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
18.7	99.5	ArrayExpress	E-MEXP-1451-raw-cel-1585200202	-	-	-
17.2	99.5	GSM133820	Yang_1-5_young-pod_Rep3_ATH1	GSE5736	To identify changes in gene expression during silique senescence in Arabidopsis thaliana
15.7	99.5	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
15.3	99.4	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.6	99.4	GSM311285	Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
14.3	99.4	GSM311283	Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
14.0	99.4	ArrayExpress	E-MEXP-1451-raw-cel-1585200234	-	-	-
12.8	99.3	GSM10448	WT Cotyledon Stage Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
11.8	99.3	GSM176878	AWP_AL_Txed_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
10.8	99.2	GSM10449	WT Cotyledon Stage Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
10.4	99.2	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
9.8	99.1	GSM131106	Broadley_1-4_A4-Bo-P3-phosphate-starved_Rep3_ATH1	GSE5614	Changes in Gene Expression in Brassica oleracea Shoots during Phosphate Starvation (Cross-species study)
9.6	99.1	GSM176880	AWP_Control_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress

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Gene ID	At3g59030
Gene name	TT12 (TRANSPARENT TESTA 12)
Functional description	Encodes a proton antiporter. Involved in the transportation of proanthocyanidin precursors into the vacuole. In vitro transport experiments showed that cyanidin-3-O-glucoside (anthocyanin) was an effective substrate, whereas the proanthocyanidin precursor epicatechin was not transported. However catechin-3-O-glucoside inhibited anthocyanin transport in a dose-dependent manner suggesting that glycosylated epicatechin is the in vivo substrate. Recessive mutation has strong reduction of proanthocyanidin deposition in vacuoles and has reduced dormancy. Expressed in the endothelium of ovules and developing seeds.