CoP: Co-expressed Biological Processes

Specifically-expressed experiments

Gene ID At5g48100

Gene name TT10 (TRANSPARENT TESTA 10)

Functional description Encodes a protein that is similar to laccase-like polyphenol oxidases. Involved in lignin and flavonoids biosynthesis. It has four conserved copper binding domains. Expressed in developing testa, where it colocalizes with the flavonoid end products proanthocyanidins and flavonols. Mutant plants exhibited a delay in developmentally determined browning of the testa, characterized by the pale brown color of seed coat. The tt10 mutant seeds accumulate more epicatechin monomers and more soluble proanthocyanidins than wild-type seeds. Flavonol composition was also affected in tt10 seeds, which exhibited a higher ratio of quercetin rhamnoside monomers versus dimers than wild-type 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
624.8 100.0 GSM311296 Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
424.3 100.0 GSM311295 Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
274.6 100.0 GSM311294 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
218.7 100.0 GSM10451 WT Mature Green Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
155.1 99.9 GSM10480 lec1-1 Cotyledon Stage Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
154.0 99.9 GSM10453 WT Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
144.6 99.9 GSM131695 ATGE_79_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
144.1 99.9 GSM10448 WT Cotyledon Stage Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
141.3 99.9 GSM131696 ATGE_79_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
136.9 99.9 ArrayExpress E-ATMX-1-raw-cel-1112746209 - - -
132.4 99.9 GSM131694 ATGE_79_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
130.4 99.9 ArrayExpress E-ATMX-1-raw-cel-1112746267 - - -
111.6 99.9 GSM10479 lec1-1 Cotyledon Stage Seed 1 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
110.6 99.9 GSM311293 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
110.3 99.9 GSM131699 ATGE_81_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
110.0 99.9 GSM10454 WT Post-Mature Green Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
108.9 99.9 ArrayExpress E-ATMX-1-raw-cel-1112746154 - - -
107.8 99.9 GSM131692 ATGE_78_E GSE5634 AtGenExpress: Developmental series (siliques and seeds)
103.9 99.9 GSM131698 ATGE_81_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
98.1 99.9 GSM131691 ATGE_78_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
95.5 99.9 GSM131697 ATGE_81_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
89.4 99.9 GSM131693 ATGE_78_F GSE5634 AtGenExpress: Developmental series (siliques and seeds)
85.7 99.9 ArrayExpress E-ATMX-1-raw-cel-1112746095 - - -
79.2 99.9 GSM10449 WT Cotyledon Stage Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
70.3 99.9 GSM131689 ATGE_77_E GSE5634 AtGenExpress: Developmental series (siliques and seeds)
70.0 99.9 GSM131688 ATGE_77_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
69.5 99.9 ArrayExpress E-MEXP-285-raw-cel-440783213 - - -
68.5 99.9 GSM131705 ATGE_83_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
68.4 99.9 GSM131690 ATGE_77_F GSE5634 AtGenExpress: Developmental series (siliques and seeds)
66.7 99.8 ArrayExpress E-MEXP-285-raw-cel-440783152 - - -
62.4 99.8 GSM131701 ATGE_82_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
60.3 99.8 GSM10482 lec1-1 Mature Green Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
59.2 99.8 GSM10481 lec1-1 Mature Green Seed 1 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
59.1 99.8 GSM131703 ATGE_83_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
56.9 99.8 GSM131706 ATGE_84_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
55.4 99.8 GSM131708 ATGE_84_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
54.9 99.8 GSM131707 ATGE_84_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
54.9 99.8 GSM131702 ATGE_82_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
50.4 99.8 GSM131704 ATGE_83_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
48.3 99.8 GSM131700 ATGE_82_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
47.7 99.8 GSM133816 Yang_1-1_young-pod_Rep1_ATH1 GSE5736 To identify changes in gene expression during silique senescence in Arabidopsis thaliana
41.5 99.8 GSM10456 WT Post-Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
36.4 99.7 ArrayExpress E-MEXP-1451-raw-cel-1585200330 - - -
33.5 99.7 ArrayExpress E-MEXP-1451-raw-cel-1585200298 - - -
17.2 99.5 GSM147966 lec1-1 Globular Stage Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants
14.3 99.4 GSM147963 WT Globular Stage Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
14.0 99.4 GSM147964 WT Globular Stage Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
12.0 99.3 GSM284398 Arabidopsis GGSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.7 99.2 GSM133818 Yang_1-3_young-pod_Rep2_ATH1 GSE5736 To identify changes in gene expression during silique senescence in Arabidopsis thaliana
9.0 99.1 GSM10484 lec1-1 Post-Mature Green Seed 2 GSE1051 Seed development in LEAFY COTYLEDON1 mutants

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
624.8	100.0	GSM311296	Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
424.3	100.0	GSM311295	Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
274.6	100.0	GSM311294	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
218.7	100.0	GSM10451	WT Mature Green Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
155.1	99.9	GSM10480	lec1-1 Cotyledon Stage Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
154.0	99.9	GSM10453	WT Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
144.6	99.9	GSM131695	ATGE_79_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
144.1	99.9	GSM10448	WT Cotyledon Stage Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
141.3	99.9	GSM131696	ATGE_79_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
136.9	99.9	ArrayExpress	E-ATMX-1-raw-cel-1112746209	-	-	-
132.4	99.9	GSM131694	ATGE_79_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
130.4	99.9	ArrayExpress	E-ATMX-1-raw-cel-1112746267	-	-	-
111.6	99.9	GSM10479	lec1-1 Cotyledon Stage Seed 1	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
110.6	99.9	GSM311293	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
110.3	99.9	GSM131699	ATGE_81_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
110.0	99.9	GSM10454	WT Post-Mature Green Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
108.9	99.9	ArrayExpress	E-ATMX-1-raw-cel-1112746154	-	-	-
107.8	99.9	GSM131692	ATGE_78_E	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
103.9	99.9	GSM131698	ATGE_81_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
98.1	99.9	GSM131691	ATGE_78_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
95.5	99.9	GSM131697	ATGE_81_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
89.4	99.9	GSM131693	ATGE_78_F	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
85.7	99.9	ArrayExpress	E-ATMX-1-raw-cel-1112746095	-	-	-
79.2	99.9	GSM10449	WT Cotyledon Stage Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
70.3	99.9	GSM131689	ATGE_77_E	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
70.0	99.9	GSM131688	ATGE_77_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
69.5	99.9	ArrayExpress	E-MEXP-285-raw-cel-440783213	-	-	-
68.5	99.9	GSM131705	ATGE_83_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
68.4	99.9	GSM131690	ATGE_77_F	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
66.7	99.8	ArrayExpress	E-MEXP-285-raw-cel-440783152	-	-	-
62.4	99.8	GSM131701	ATGE_82_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
60.3	99.8	GSM10482	lec1-1 Mature Green Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
59.2	99.8	GSM10481	lec1-1 Mature Green Seed 1	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
59.1	99.8	GSM131703	ATGE_83_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
56.9	99.8	GSM131706	ATGE_84_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
55.4	99.8	GSM131708	ATGE_84_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
54.9	99.8	GSM131707	ATGE_84_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
54.9	99.8	GSM131702	ATGE_82_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
50.4	99.8	GSM131704	ATGE_83_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
48.3	99.8	GSM131700	ATGE_82_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
47.7	99.8	GSM133816	Yang_1-1_young-pod_Rep1_ATH1	GSE5736	To identify changes in gene expression during silique senescence in Arabidopsis thaliana
41.5	99.8	GSM10456	WT Post-Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
36.4	99.7	ArrayExpress	E-MEXP-1451-raw-cel-1585200330	-	-	-
33.5	99.7	ArrayExpress	E-MEXP-1451-raw-cel-1585200298	-	-	-
17.2	99.5	GSM147966	lec1-1 Globular Stage Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants
14.3	99.4	GSM147963	WT Globular Stage Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
14.0	99.4	GSM147964	WT Globular Stage Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
12.0	99.3	GSM284398	Arabidopsis GGSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.7	99.2	GSM133818	Yang_1-3_young-pod_Rep2_ATH1	GSE5736	To identify changes in gene expression during silique senescence in Arabidopsis thaliana
9.0	99.1	GSM10484	lec1-1 Post-Mature Green Seed 2	GSE1051	Seed development in LEAFY COTYLEDON1 mutants

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Gene ID	At5g48100
Gene name	TT10 (TRANSPARENT TESTA 10)
Functional description	Encodes a protein that is similar to laccase-like polyphenol oxidases. Involved in lignin and flavonoids biosynthesis. It has four conserved copper binding domains. Expressed in developing testa, where it colocalizes with the flavonoid end products proanthocyanidins and flavonols. Mutant plants exhibited a delay in developmentally determined browning of the testa, characterized by the pale brown color of seed coat. The tt10 mutant seeds accumulate more epicatechin monomers and more soluble proanthocyanidins than wild-type seeds. Flavonol composition was also affected in tt10 seeds, which exhibited a higher ratio of quercetin rhamnoside monomers versus dimers than wild-type seeds.