CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g23700

Gene name ATCHX17 (CATION/H+ EXCHANGER 17)

Module size 5 genes

NF 0.10

%ile 6.2

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
0.20 14.4 1.00 At4g23700 828470 ATCHX17 (CATION/H+ EXCHANGER 17) member of Putative Na+/H+ antiporter family O.I. H.G. S.X.
0.25 22.6 0.64 At2g45220 819130 pectinesterase family protein F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:membrane, plant-type cell wall;PBFOM O.I. H.G. S.X.
0.12 4.9 0.62 At5g13080 831147 WRKY75 WRKY75 is one of several transcription factors induced during Pi deprivation. It is nuclear localized and regulated differentially during Pi starvation. RNAi mediated suppression of WRKY75 made the plants more susceptible to Pi stress as indicated by the higher accumulation of anthocyanin during Pi starvation. O.I. H.G. S.X.
0.09 2.8 0.64 At1g30700 839950 FAD-binding domain-containing protein F:electron carrier activity, oxidoreductase activity, FAD binding, catalytic activity;P:unknown;C:endomembrane system;BFPOA O.I. H.G. S.X.
0.04 0.9 0.61 At1g60730 842367 aldo/keto reductase family protein F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:unknown;BOFMPA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.20	14.4	1.00	At4g23700	828470	ATCHX17 (CATION/H+ EXCHANGER 17)	member of Putative Na+/H+ antiporter family	O.I.	H.G.	S.X.
0.25	22.6	0.64	At2g45220	819130	pectinesterase family protein	F:enzyme inhibitor activity, pectinesterase activity;P:cell wall modification;C:membrane, plant-type cell wall;PBFOM	O.I.	H.G.	S.X.
0.12	4.9	0.62	At5g13080	831147	WRKY75	WRKY75 is one of several transcription factors induced during Pi deprivation. It is nuclear localized and regulated differentially during Pi starvation. RNAi mediated suppression of WRKY75 made the plants more susceptible to Pi stress as indicated by the higher accumulation of anthocyanin during Pi starvation.	O.I.	H.G.	S.X.
0.09	2.8	0.64	At1g30700	839950	FAD-binding domain-containing protein	F:electron carrier activity, oxidoreductase activity, FAD binding, catalytic activity;P:unknown;C:endomembrane system;BFPOA	O.I.	H.G.	S.X.
0.04	0.9	0.61	At1g60730	842367	aldo/keto reductase family protein	F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:unknown;BOFMPA	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
27.0 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.6 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.9 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.8 99.6 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.8 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.0 99.6 E-MEXP-1797-raw-cel-1669767994
20.5 99.6 E-MEXP-1797-raw-cel-1669768075
19.8 99.6 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.7 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.5 99.6 E-ATMX-31-raw-cel-1516947882
18.4 99.5 E-ATMX-31-raw-cel-1516947916
18.4 99.5 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.9 99.5 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.3 99.5 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
17.2 99.5 E-MEXP-1797-raw-cel-1669767976
16.8 99.5 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.5 99.5 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.3 99.5 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.9 99.5 E-MEXP-1797-raw-cel-1669768012
15.8 99.5 E-MEXP-1797-raw-cel-1669767967
15.6 99.5 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.3 99.4 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.5 99.4 E-MEXP-1797-raw-cel-1669768048
14.5 99.4 E-ATMX-31-raw-cel-1516947899
13.9 99.4 E-MEXP-1797-raw-cel-1669768003
13.5 99.4 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
13.3 99.4 E-MEXP-1797-raw-cel-1669768066
13.0 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.8 99.3 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.6 99.3 E-MEXP-1797-raw-cel-1669768084
12.5 99.3 GSM142879 GW001_ATH1_A24-Warre-03f GSE6177 The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
12.5 99.3 E-MEXP-1797-raw-cel-1669768021
12.5 99.3 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.4 99.3 GSM131279 AtGen_6-1611_Cold(4°C)-Shoots-24.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
12.2 99.3 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.2 99.3 E-MEXP-1797-raw-cel-1669767985
12.2 99.3 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.7 99.3 GSM131280 AtGen_6-1612_Cold(4°C)-Shoots-24.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
11.4 99.3 GSM142878 GW001_ATH1_A23-Warre-03f GSE6177 The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
11.3 99.3 E-MEXP-1797-raw-cel-1669767958
11.2 99.2 E-MEXP-1797-raw-cel-1669768057
9.6 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)
8.9 99.0 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
8.8 99.0 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
8.6 99.0 GSM142905 WW002_ATH1_A1-willa-CON-REP3 GSE6181 Assembly of the cell wall pectic matrix.
8.6 99.0 E-MEXP-1797-raw-cel-1669768030

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
27.0	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.6	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.9	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
21.8	99.6	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.8	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.0	99.6	E-MEXP-1797-raw-cel-1669767994
20.5	99.6	E-MEXP-1797-raw-cel-1669768075
19.8	99.6	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.7	99.6	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.5	99.6	E-ATMX-31-raw-cel-1516947882
18.4	99.5	E-ATMX-31-raw-cel-1516947916
18.4	99.5	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.9	99.5	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
17.3	99.5	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
17.2	99.5	E-MEXP-1797-raw-cel-1669767976
16.8	99.5	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.5	99.5	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.3	99.5	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.9	99.5	E-MEXP-1797-raw-cel-1669768012
15.8	99.5	E-MEXP-1797-raw-cel-1669767967
15.6	99.5	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.3	99.4	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.5	99.4	E-MEXP-1797-raw-cel-1669768048
14.5	99.4	E-ATMX-31-raw-cel-1516947899
13.9	99.4	E-MEXP-1797-raw-cel-1669768003
13.5	99.4	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
13.3	99.4	E-MEXP-1797-raw-cel-1669768066
13.0	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.8	99.3	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.6	99.3	E-MEXP-1797-raw-cel-1669768084
12.5	99.3	GSM142879	GW001_ATH1_A24-Warre-03f	GSE6177	The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
12.5	99.3	E-MEXP-1797-raw-cel-1669768021
12.5	99.3	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.4	99.3	GSM131279	AtGen_6-1611_Cold(4°C)-Shoots-24.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
12.2	99.3	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.2	99.3	E-MEXP-1797-raw-cel-1669767985
12.2	99.3	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.7	99.3	GSM131280	AtGen_6-1612_Cold(4°C)-Shoots-24.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
11.4	99.3	GSM142878	GW001_ATH1_A23-Warre-03f	GSE6177	The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
11.3	99.3	E-MEXP-1797-raw-cel-1669767958
11.2	99.2	E-MEXP-1797-raw-cel-1669768057
9.6	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)
8.9	99.0	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
8.8	99.0	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
8.6	99.0	GSM142905	WW002_ATH1_A1-willa-CON-REP3	GSE6181	Assembly of the cell wall pectic matrix.
8.6	99.0	E-MEXP-1797-raw-cel-1669768030

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.333 1 GO:0032107 Any process that modulates the frequency, rate or extent of a response to nutrient levels.
0.333 1 GO:0043620 Modulation of the frequency, rate or extent of transcription as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
0.071 1 GO:0048527 The process whose specific outcome is the progression of the lateral root over time, from its formation to the mature structure. A lateral root is one formed from pericycle cells located on the xylem radius of the root, as opposed to the initiation of the main root from the embryo proper.

SF	Genes	GO ID	Process Name
0.333	1	GO:0032107	Any process that modulates the frequency, rate or extent of a response to nutrient levels.
0.333	1	GO:0043620	Modulation of the frequency, rate or extent of transcription as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
0.071	1	GO:0048527	The process whose specific outcome is the progression of the lateral root over time, from its formation to the mature structure. A lateral root is one formed from pericycle cells located on the xylem radius of the root, as opposed to the initiation of the main root from the embryo proper.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.054 1 00040 Pentose and glucuronate interconversions
0.022 1 00500 Starch and sucrose metabolism
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.054	1	00040	Pentose and glucuronate interconversions
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

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Gene ID	At4g23700
Gene name	ATCHX17 (CATION/H+ EXCHANGER 17)
Module size	5 genes
NF	0.10
%ile	6.2

Co-expression analysis

Gene ID At4g23700 Gene name ATCHX17 (CATION/H+ EXCHANGER 17) Module size 5 genes NF 0.10 %ile 6.2

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 KEGG0.054100040Pentose and glucuronate interconversions0.022100500Starch 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 At4g23700

Gene name ATCHX17 (CATION/H+ EXCHANGER 17)

Module size 5 genes

NF 0.10

%ile 6.2

: 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
0.054 1 00040 Pentose and glucuronate interconversions
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