CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g80130

Gene name binding

Module size 5 genes

NF 0.01

%ile 0.7

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
0.40 50.8 1.00 At1g80130 844353 binding F:binding;P:response to oxidative stress;C:membrane;BPOMFAV O.I. H.G. S.X.
0.13 5.8 0.61 At1g11210 837662 unknown protein F:molecular_function unknown;P:response to oxidative stress;C:endomembrane system;PO O.I. H.G. S.X.
0.05 1.1 0.67 At4g39210 830076 APL3 Encodes the large subunit of ADP-Glucose Pyrophosphorylase which catalyzes the first, rate limiting step in starch biosynthesis. The large subunit plays a regulatory role whereas the small subunit (ApS) is the catalytic isoform. Four isoforms (ApL1-4) have been identified. ApL3 is the major large subunit isoform present in inflorescences, fruits and roots. O.I. H.G. S.X.
0.01 0.2 0.58 At1g29395 839815 COR414-TM1 encodes a protein similar to the cold acclimation protein WCOR413 in wheat. Expression is induced by short-term cold-treatment, water deprivation, and abscisic acid treatment. Possibly targeted to thylakoid membrane. O.I. H.G. S.X.
0.01 0.2 0.58 At1g69870 843323 proton-dependent oligopeptide transport (POT) family protein F:transporter activity;P:response to salt stress, oligopeptide transport;C:plasma membrane, membrane;PBMFO O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.40	50.8	1.00	At1g80130	844353	binding	F:binding;P:response to oxidative stress;C:membrane;BPOMFAV	O.I.	H.G.	S.X.
0.13	5.8	0.61	At1g11210	837662	unknown protein	F:molecular_function unknown;P:response to oxidative stress;C:endomembrane system;PO	O.I.	H.G.	S.X.
0.05	1.1	0.67	At4g39210	830076	APL3	Encodes the large subunit of ADP-Glucose Pyrophosphorylase which catalyzes the first, rate limiting step in starch biosynthesis. The large subunit plays a regulatory role whereas the small subunit (ApS) is the catalytic isoform. Four isoforms (ApL1-4) have been identified. ApL3 is the major large subunit isoform present in inflorescences, fruits and roots.	O.I.	H.G.	S.X.
0.01	0.2	0.58	At1g29395	839815	COR414-TM1	encodes a protein similar to the cold acclimation protein WCOR413 in wheat. Expression is induced by short-term cold-treatment, water deprivation, and abscisic acid treatment. Possibly targeted to thylakoid membrane.	O.I.	H.G.	S.X.
0.01	0.2	0.58	At1g69870	843323	proton-dependent oligopeptide transport (POT) family protein	F:transporter activity;P:response to salt stress, oligopeptide transport;C:plasma membrane, membrane;PBMFO	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
65.9 99.8 E-MEXP-1474-raw-cel-1593932865
38.9 99.8 E-MEXP-1474-raw-cel-1593932929
38.5 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
36.8 99.7 E-MEXP-1474-raw-cel-1593932801
31.2 99.7 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
25.8 99.7 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
20.2 99.6 E-MEXP-1451-raw-cel-1585200362
19.7 99.6 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.4 99.6 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.3 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.1 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.1 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.0 99.5 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.4 99.5 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.3 99.5 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.2 99.5 GSM189112 HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1 GSE7796 Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 Levels
16.7 99.5 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.6 99.5 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0 99.5 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
16.0 99.5 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.6 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5 99.5 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.1 99.4 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
13.8 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7 99.4 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.4 99.4 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.0 99.4 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.0 99.2 GSM133120 RIKEN-YAMAUCHI2B GSE5687 AtGenExpress: Different temperature treatment of seeds
9.8 99.1 E-MEXP-849-raw-cel-1181981030
8.8 99.0 E-MEXP-265-raw-cel-414618394
8.6 99.0 GSM245494 9 hr Hypoxia Stress IP RNA Rep 3 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
65.9	99.8	E-MEXP-1474-raw-cel-1593932865
38.9	99.8	E-MEXP-1474-raw-cel-1593932929
38.5	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
36.8	99.7	E-MEXP-1474-raw-cel-1593932801
31.2	99.7	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
25.8	99.7	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
20.2	99.6	E-MEXP-1451-raw-cel-1585200362
19.7	99.6	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.4	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.3	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.1	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.1	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.0	99.5	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.4	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.4	99.5	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.3	99.5	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.2	99.5	GSM189112	HSP90_Reduced_RNAi-A3_Biological_Replicate_2_Technical_Replicate_1	GSE7796	Phenotypic Diversity and Altered Environmental Plasticity in Arabidopsis thaliana with Reduced HSP90 Levels
16.7	99.5	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.6	99.5	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.0	99.5	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
16.0	99.5	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.6	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.5	99.5	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.1	99.4	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
13.8	99.4	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7	99.4	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.4	99.4	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.0	99.4	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.0	99.2	GSM133120	RIKEN-YAMAUCHI2B	GSE5687	AtGenExpress: Different temperature treatment of seeds
9.8	99.1	E-MEXP-849-raw-cel-1181981030
8.8	99.0	E-MEXP-265-raw-cel-414618394
8.6	99.0	GSM245494	9 hr Hypoxia Stress IP RNA Rep 3	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0080055 The directed movement of nitrate into, out of, within or between cells. In low affinity transport the transporter is able to bind the solute only if it is present at very high concentrations.
0.200 1 GO:0042631 A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of water.
0.143 1 GO:0015706 The directed movement of nitrate into, out of, within or between cells.

SF	Genes	GO ID	Process Name
0.286	1	GO:0080055	The directed movement of nitrate into, out of, within or between cells. In low affinity transport the transporter is able to bind the solute only if it is present at very high concentrations.
0.200	1	GO:0042631	A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of water.
0.143	1	GO:0015706	The directed movement of nitrate into, out of, within or between cells.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.026 1 00520 Amino sugar and nucleotide sugar metabolism
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.026	1	00520	Amino sugar and nucleotide sugar metabolism
0.022	1	00500	Starch and sucrose metabolism
0.002	1	01100	Metabolic pathways

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	At1g80130
Gene name	binding
Module size	5 genes
NF	0.01
%ile	0.7

Co-expression analysis

Gene ID At1g80130 Gene name binding Module size 5 genes NF 0.01 %ile 0.7

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 KEGG0.026100520Amino sugar and nucleotide sugar metabolism0.022100500Starch and sucrose metabolism0.002101100Metabolic pathways

Inter-species module comparison

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

Gene ID At1g80130

Gene name binding

Module size 5 genes

NF 0.01

%ile 0.7

: 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
0.026 1 00520 Amino sugar and nucleotide sugar metabolism
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

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