CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g43190

Gene name SUS4

Module size 13 genes

NF 0.69

%ile 88.5

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
0.59 74.7 1.00 At3g43190 823393 SUS4 Encodes a protein with sucrose synthase activity (SUS4). O.I. H.G. S.X.
0.96 97.3 0.65 At3g29970 822700 germination protein-related F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.87 93.5 0.60 At2g17850 816295 - F:molecular_function unknown;P:aging;C:endomembrane system;BOPAMF O.I. H.G. S.X.
0.80 89.8 0.62 At5g10040 830868 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.75 86.9 0.77 At4g33070 829444 pyruvate decarboxylase, putative F:in 6 functions;P:unknown;C:membrane;BOFPAMV O.I. H.G. S.X.
0.75 86.9 0.63 At4g33560 829495 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.73 85.5 0.66 At2g29870 817537 major intrinsic family protein / MIP family protein F:water channel activity;P:transport;C:membrane;BPMOFA O.I. H.G. S.X.
0.70 83.5 0.66 At5g66985 836833 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.67 81.6 0.58 At1g33055 840201 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.67 81.6 0.68 At2g16060 816103 AHB1 (ARABIDOPSIS HEMOGLOBIN 1) Encodes a class 1 nonsymbiotic hemoglobin induced by low oxygen levels with very high oxygen affinity. It is not likely to be a hemoglobin transporter because of its extremely high affinity for oxygen. O.I. H.G. S.X.
0.61 76.7 0.60 At5g39890 833986 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.56 73.0 0.61 At1g43800 840977 acyl-(acyl-carrier-protein) desaturase, putative / stearoyl-ACP desaturase, putative F:acyl-[acyl-carrier-protein] desaturase activity, oxidoreductase activity, transition metal ion binding;P:fatty acid metabolic process, fatty acid biosynthetic process;C:membrane;PBOM O.I. H.G. S.X.
0.53 68.6 0.65 At3g03270 821303 universal stress protein (USP) family protein / early nodulin ENOD18 family protein F:unknown;P:response to stress;C:plasma membrane, membrane;PFMBO O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.59	74.7	1.00	At3g43190	823393	SUS4	Encodes a protein with sucrose synthase activity (SUS4).	O.I.	H.G.	S.X.
0.96	97.3	0.65	At3g29970	822700	germination protein-related	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.87	93.5	0.60	At2g17850	816295	-	F:molecular_function unknown;P:aging;C:endomembrane system;BOPAMF	O.I.	H.G.	S.X.
0.80	89.8	0.62	At5g10040	830868	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.75	86.9	0.77	At4g33070	829444	pyruvate decarboxylase, putative	F:in 6 functions;P:unknown;C:membrane;BOFPAMV	O.I.	H.G.	S.X.
0.75	86.9	0.63	At4g33560	829495	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.73	85.5	0.66	At2g29870	817537	major intrinsic family protein / MIP family protein	F:water channel activity;P:transport;C:membrane;BPMOFA	O.I.	H.G.	S.X.
0.70	83.5	0.66	At5g66985	836833	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.67	81.6	0.58	At1g33055	840201	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.67	81.6	0.68	At2g16060	816103	AHB1 (ARABIDOPSIS HEMOGLOBIN 1)	Encodes a class 1 nonsymbiotic hemoglobin induced by low oxygen levels with very high oxygen affinity. It is not likely to be a hemoglobin transporter because of its extremely high affinity for oxygen.	O.I.	H.G.	S.X.
0.61	76.7	0.60	At5g39890	833986	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	H.G.	S.X.
0.56	73.0	0.61	At1g43800	840977	acyl-(acyl-carrier-protein) desaturase, putative / stearoyl-ACP desaturase, putative	F:acyl-[acyl-carrier-protein] desaturase activity, oxidoreductase activity, transition metal ion binding;P:fatty acid metabolic process, fatty acid biosynthetic process;C:membrane;PBOM	O.I.	H.G.	S.X.
0.53	68.6	0.65	At3g03270	821303	universal stress protein (USP) family protein / early nodulin ENOD18 family protein	F:unknown;P:response to stress;C:plasma membrane, membrane;PFMBO	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
96.9 99.9 GSM133760 Lindsey_1-12_heart-stage-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.0 99.6 GSM131281 AtGen_6-1621_Cold(4°C)-Roots-24.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
23.3 99.6 GSM131282 AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
21.9 99.6 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1 99.6 GSM131278 AtGen_6-1522_Cold(4°C)-Roots-12.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
20.9 99.6 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.8 99.6 GSM131277 AtGen_6-1521_Cold(4°C)-Roots-12.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
20.5 99.6 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7 99.5 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
18.1 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.5 99.5 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.7 99.5 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.1 99.5 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.7 99.5 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.4 99.5 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.0 99.4 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.0 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6 99.4 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
14.6 99.4 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.2 99.4 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.1 99.4 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.8 99.3 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.4 99.3 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.8 99.2 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.8 99.2 E-ATMX-33-raw-cel-1562596241
10.7 99.2 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.7 99.2 E-ATMX-25-raw-cel-1441077482
10.6 99.2 E-MEXP-1443-raw-cel-1581869573
9.6 99.1 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
96.9	99.9	GSM133760	Lindsey_1-12_heart-stage-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.0	99.6	GSM131281	AtGen_6-1621_Cold(4°C)-Roots-24.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
23.3	99.6	GSM131282	AtGen_6-1622_Cold(4°C)-Roots-24.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
21.9	99.6	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1	99.6	GSM131278	AtGen_6-1522_Cold(4°C)-Roots-12.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
20.9	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.8	99.6	GSM131277	AtGen_6-1521_Cold(4°C)-Roots-12.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
20.5	99.6	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7	99.5	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
18.1	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.5	99.5	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.7	99.5	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.1	99.5	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.7	99.5	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.4	99.5	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.0	99.4	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.0	99.4	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.6	99.4	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
14.6	99.4	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.2	99.4	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.1	99.4	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.8	99.3	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.4	99.3	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.8	99.2	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.8	99.2	E-ATMX-33-raw-cel-1562596241
10.7	99.2	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.7	99.2	E-ATMX-25-raw-cel-1441077482
10.6	99.2	E-MEXP-1443-raw-cel-1581869573
9.6	99.1	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
0.080 1 GO:0005986 The chemical reactions and pathways resulting in the formation of sucrose, the disaccharide fructofuranosyl-glucopyranoside.
0.069 1 GO:0001666 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
0.056 1 GO:0006631 The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.

SF	Genes	GO ID	Process Name
0.080	1	GO:0005986	The chemical reactions and pathways resulting in the formation of sucrose, the disaccharide fructofuranosyl-glucopyranoside.
0.069	1	GO:0001666	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
0.056	1	GO:0006631	The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.056 1 00061 Fatty acid biosynthesis
0.051 1 01040 Biosynthesis of unsaturated fatty acids
0.021 1 00500 Starch and sucrose metabolism

SF	Genes	KEGG ID	Pathway name
0.056	1	00061	Fatty acid biosynthesis
0.051	1	01040	Biosynthesis of unsaturated fatty acids
0.021	1	00500	Starch and sucrose metabolism

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	At3g43190
Gene name	SUS4
Module size	13 genes
NF	0.69
%ile	88.5

Co-expression analysis

Gene ID At3g43190 Gene name SUS4 Module size 13 genes NF 0.69 %ile 88.5

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 KEGG0.056100061Fatty acid biosynthesis0.051101040Biosynthesis of unsaturated fatty acids0.021100500Starch and sucrose metabolism

Inter-species module comparison

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

Gene ID At3g43190

Gene name SUS4

Module size 13 genes

NF 0.69

%ile 88.5

: 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
0.056 1 00061 Fatty acid biosynthesis
0.051 1 01040 Biosynthesis of unsaturated fatty acids
0.021 1 00500 Starch and sucrose metabolism

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