CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g03890

Gene name cupin family protein

Module size 6 genes

NF 0.75

%ile 92.0

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.47 61.2 1.00 At1g03890 839379 cupin family protein F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;PBMO O.I. H.G. S.X.
1.00 100.0 0.94 At4g27170 828825 2S seed storage protein 4 / 2S albumin storage protein / NWMU2-2S albumin 4 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO O.I. H.G. S.X.
0.91 95.6 0.94 At4g27150 828823 2S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO O.I. H.G. S.X.
0.89 94.6 0.92 At4g27140 828822 2S seed storage protein 1 / 2S albumin storage protein / NWMU1-2S albumin 1 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PMO O.I. H.G. S.X.
0.89 94.6 0.89 At4g27160 828824 AT2S3 F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO O.I. H.G. S.X.
0.63 78.1 0.92 At1g03880 839383 CRU2 (CRUCIFERIN 2) Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.47	61.2	1.00	At1g03890	839379	cupin family protein	F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;PBMO	O.I.	H.G.	S.X.
1.00	100.0	0.94	At4g27170	828825	2S seed storage protein 4 / 2S albumin storage protein / NWMU2-2S albumin 4	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.91	95.6	0.94	At4g27150	828823	2S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.89	94.6	0.92	At4g27140	828822	2S seed storage protein 1 / 2S albumin storage protein / NWMU1-2S albumin 1	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PMO	O.I.	H.G.	S.X.
0.89	94.6	0.89	At4g27160	828824	AT2S3	F:lipid binding, nutrient reservoir activity;P:lipid transport;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.63	78.1	0.92	At1g03880	839383	CRU2 (CRUCIFERIN 2)	Protein is tyrosine-phosphorylated and its phosphorylation state is modulated in response to ABA in Arabidopsis thaliana seeds.	O.I.	H.G.	S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
72.0 99.9 GSM131607 ATGE_42_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
61.5 99.8 GSM131606 ATGE_42_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
51.7 99.8 GSM131608 ATGE_42_D GSE5632 AtGenExpress: Developmental series (flowers and pollen)
51.5 99.8 E-ATMX-35-raw-cel-1574334848
45.6 99.8 E-MEXP-285-raw-cel-440782791
39.2 99.8 GSM154508 Arabidopsis growing pollen tubes rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
38.0 99.8 GSM239251 Columbia glabrous (C24) wild type pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
32.0 99.7 GSM154507 Arabidopsis growing pollen tubes rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
31.1 99.7 E-ATMX-35-raw-cel-1574334864
29.7 99.7 GSM239253 CaMV::DME pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
26.8 99.7 E-MEXP-285-raw-cel-440782725
24.1 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
23.5 99.6 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.0 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.5 99.6 E-ATMX-35-raw-cel-1574334880
21.4 99.6 GSM133812 Diamond_A-1-Diamo-met_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
19.7 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.5 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.4 99.6 GSM133815 Diamond_A-4-Diamo-met_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
19.3 99.6 GSM131638 ATGE_73_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
19.2 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4 99.5 GSM133809 Diamond_A-2-Diamo-fum_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
18.1 99.5 GSM133814 Diamond_A-3-Diamo-met_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
17.7 99.5 GSM133808 Diamond_A-1-Diamo-fum_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
17.3 99.5 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.5 99.5 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.1 99.5 GSM131605 ATGE_41_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
16.0 99.5 GSM133811 Diamond_A-4-Diamo-fum_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.9 99.5 GSM133813 Diamond_A-2-Diamo-met_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.7 99.5 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5 99.5 GSM133810 Diamond_A-3-Diamo-fum_SLD GSE5735 Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.3 99.4 GSM131603 ATGE_41_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
15.0 99.4 E-MEXP-1138-raw-cel-1432773226
15.0 99.4 GSM131604 ATGE_41_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
14.8 99.4 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8 99.4 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
14.3 99.4 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
14.2 99.4 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.0 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.4 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.3 99.4 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.2 99.4 E-MEXP-1138-raw-cel-1432772682
13.1 99.4 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.9 99.3 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.4 99.3 GSM184552 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.6 99.3 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.4 99.3 E-MEXP-1138-raw-cel-1432772650
11.1 99.2 E-MEXP-1797-raw-cel-1669767940
11.1 99.2 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.9 99.2 E-MEXP-1138-raw-cel-1432772554
10.1 99.2 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
9.9 99.1 E-MEXP-1797-raw-cel-1669768030
9.8 99.1 E-MEXP-1138-raw-cel-1432773354
9.4 99.1 GSM239254 CaMV::DME stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.4 99.1 E-MEXP-849-raw-cel-1181980982
9.1 99.1 E-MEXP-1138-raw-cel-1432772714
9.1 99.1 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
8.9 99.0 E-MEXP-1138-raw-cel-1432772522
8.7 99.0 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
72.0	99.9	GSM131607	ATGE_42_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
61.5	99.8	GSM131606	ATGE_42_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
51.7	99.8	GSM131608	ATGE_42_D	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
51.5	99.8	E-ATMX-35-raw-cel-1574334848
45.6	99.8	E-MEXP-285-raw-cel-440782791
39.2	99.8	GSM154508	Arabidopsis growing pollen tubes rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
38.0	99.8	GSM239251	Columbia glabrous (C24) wild type pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
32.0	99.7	GSM154507	Arabidopsis growing pollen tubes rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
31.1	99.7	E-ATMX-35-raw-cel-1574334864
29.7	99.7	GSM239253	CaMV::DME pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
26.8	99.7	E-MEXP-285-raw-cel-440782725
24.1	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
23.5	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.0	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.5	99.6	E-ATMX-35-raw-cel-1574334880
21.4	99.6	GSM133812	Diamond_A-1-Diamo-met_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
19.7	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.5	99.6	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.4	99.6	GSM133815	Diamond_A-4-Diamo-met_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
19.3	99.6	GSM131638	ATGE_73_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
19.2	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4	99.5	GSM133809	Diamond_A-2-Diamo-fum_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
18.1	99.5	GSM133814	Diamond_A-3-Diamo-met_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
17.7	99.5	GSM133808	Diamond_A-1-Diamo-fum_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
17.3	99.5	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.5	99.5	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.1	99.5	GSM131605	ATGE_41_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
16.0	99.5	GSM133811	Diamond_A-4-Diamo-fum_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.9	99.5	GSM133813	Diamond_A-2-Diamo-met_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.7	99.5	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5	99.5	GSM133810	Diamond_A-3-Diamo-fum_SLD	GSE5735	Identification of Core Genes Regulating Plant Programmed Cell Death (PCD)
15.3	99.4	GSM131603	ATGE_41_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
15.0	99.4	E-MEXP-1138-raw-cel-1432773226
15.0	99.4	GSM131604	ATGE_41_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
14.8	99.4	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8	99.4	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
14.3	99.4	GSM131636	ATGE_73_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
14.2	99.4	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.0	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.4	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.3	99.4	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.2	99.4	E-MEXP-1138-raw-cel-1432772682
13.1	99.4	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.9	99.3	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.4	99.3	GSM184552	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.6	99.3	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.4	99.3	E-MEXP-1138-raw-cel-1432772650
11.1	99.2	E-MEXP-1797-raw-cel-1669767940
11.1	99.2	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.9	99.2	E-MEXP-1138-raw-cel-1432772554
10.1	99.2	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
9.9	99.1	E-MEXP-1797-raw-cel-1669768030
9.8	99.1	E-MEXP-1138-raw-cel-1432773354
9.4	99.1	GSM239254	CaMV::DME stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.4	99.1	E-MEXP-849-raw-cel-1181980982
9.1	99.1	E-MEXP-1138-raw-cel-1432772714
9.1	99.1	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
8.9	99.0	E-MEXP-1138-raw-cel-1432772522
8.7	99.0	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.063 4 GO:0006869 The directed movement of lipids into, out of, within or between cells. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
0.045 1 GO:0009845 The physiological and developmental changes that occur in a seed commencing with water uptake (imbibition) and terminating with the elongation of the embryonic axis.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.063	4	GO:0006869	The directed movement of lipids into, out of, within or between cells. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
0.045	1	GO:0009845	The physiological and developmental changes that occur in a seed commencing with water uptake (imbibition) and terminating with the elongation of the embryonic axis.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At1g03890
Gene name	cupin family protein
Module size	6 genes
NF	0.75
%ile	92.0

Co-expression analysis

Gene ID At1g03890 Gene name cupin family protein Module size 6 genes NF 0.75 %ile 92.0

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At1g03890

Gene name cupin family protein

Module size 6 genes

NF 0.75

%ile 92.0

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

SF Genes KEGG ID Pathway name Link to KEGG

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays