CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g20760

Gene name calcium-binding EF hand family protein

Module size 7 genes

NF 0.67

%ile 86.9

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
0.55 70.6 1.00 At1g20760 838666 calcium-binding EF hand family protein F:calcium ion binding;P:unknown;C:plasma membrane;MBOFPVA O.I. H.G. S.X.
0.83 91.4 0.90 At1g17450 838317 - F:molecular_function unknown;P:unknown;C:unknown;POB O.I. H.G. S.X.
0.77 88.0 0.88 At4g31930 829323 mitochondrial glycoprotein family protein / MAM33 family protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, mitochondrial matrix;PFO O.I. H.G. S.X.
0.71 84.2 0.89 At5g65490 836674 - F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFBPVA O.I. H.G. S.X.
0.67 81.6 0.90 At1g55170 841960 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.67 81.6 0.92 At1g67890 843117 protein kinase family protein F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:signal transduction, protein amino acid phosphorylation, regulation of transcription, DNA-dependent;C:unknown;MPOBFVA O.I. H.G. S.X.
0.59 74.7 0.88 At5g65450 836670 UBP17 (UBIQUITIN-SPECIFIC PROTEASE 17) Encodes a ubiquitin-specific protease. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.55	70.6	1.00	At1g20760	838666	calcium-binding EF hand family protein	F:calcium ion binding;P:unknown;C:plasma membrane;MBOFPVA	O.I.	H.G.	S.X.
0.83	91.4	0.90	At1g17450	838317	-	F:molecular_function unknown;P:unknown;C:unknown;POB	O.I.	H.G.	S.X.
0.77	88.0	0.88	At4g31930	829323	mitochondrial glycoprotein family protein / MAM33 family protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, mitochondrial matrix;PFO	O.I.	H.G.	S.X.
0.71	84.2	0.89	At5g65490	836674	-	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFBPVA	O.I.	H.G.	S.X.
0.67	81.6	0.90	At1g55170	841960	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.67	81.6	0.92	At1g67890	843117	protein kinase family protein	F:protein serine/threonine/tyrosine kinase activity, kinase activity;P:signal transduction, protein amino acid phosphorylation, regulation of transcription, DNA-dependent;C:unknown;MPOBFVA	O.I.	H.G.	S.X.
0.59	74.7	0.88	At5g65450	836670	UBP17 (UBIQUITIN-SPECIFIC PROTEASE 17)	Encodes a ubiquitin-specific protease.	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
60.6 99.8 GSM184906 Arabidopsis, root cells, protophloem, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
60.0 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
53.6 99.8 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
45.6 99.8 GSM184923 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
43.5 99.8 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
34.8 99.7 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.7 99.7 E-ATMX-35-raw-cel-1574334816
34.6 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.9 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.8 99.7 E-ATMX-35-raw-cel-1574334832
31.0 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.4 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.9 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.6 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.5 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.2 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
26.8 99.7 GSM184905 Arabidopsis, root cells, protophloem, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
26.4 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.8 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
25.5 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
25.3 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.5 99.6 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
23.4 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.7 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.8 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.4 99.6 GSM184904 Arabidopsis, root cells, protophloem, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
21.2 99.6 GSM133773 Lindsey_1-25_torpedo-meristem_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.6 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.4 99.6 E-ATMX-35-raw-cel-1574334800
17.1 99.5 GSM131603 ATGE_41_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
17.1 99.5 E-MEXP-1443-raw-cel-1581869921
16.8 99.5 GSM131604 ATGE_41_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
16.2 99.5 GSM142740 DH001_ATH1_A7-MPG1 GSE6162 Transcriptome analysis of Arabidopsis microgametogenesis
15.9 99.5 E-ATMX-32-raw-cel-1562974681
15.6 99.5 E-MEXP-1443-raw-cel-1581869863
14.9 99.4 GSM131605 ATGE_41_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
12.8 99.3 E-ATMX-32-raw-cel-1562974409
12.4 99.3 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
11.7 99.3 GSM142804 SS001_ATH1_A7-Smith-10 GSE6174 Gene expression and carbohydrate metabolism through the diurnal cycle
11.5 99.3 GSM131539 ATGE_25_C GSE5630 AtGenExpress: Developmental series (leaves)
10.7 99.2 GSM131538 ATGE_25_B GSE5630 AtGenExpress: Developmental series (leaves)
10.4 99.2 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.3 99.2 GSM284387 Arabidopsis GSUS4b GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.2 99.2 E-MEXP-509-raw-cel-829148090
9.8 99.1 GSM131537 ATGE_25_A GSE5630 AtGenExpress: Developmental series (leaves)
9.5 99.1 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.3 99.1 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
8.8 99.0 GSM204069 protoplast_hypoxia_rep1 GSE8248 Identification of hypoxia-inducible genes in Arabidopsis mesophyll cells

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
60.6	99.8	GSM184906	Arabidopsis, root cells, protophloem, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
60.0	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
53.6	99.8	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
45.6	99.8	GSM184923	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
43.5	99.8	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
34.8	99.7	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.7	99.7	E-ATMX-35-raw-cel-1574334816
34.6	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.9	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.8	99.7	E-ATMX-35-raw-cel-1574334832
31.0	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.4	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.9	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.6	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.5	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.2	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
26.8	99.7	GSM184905	Arabidopsis, root cells, protophloem, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
26.4	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.8	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
25.5	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
25.3	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.5	99.6	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
23.4	99.6	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.7	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.8	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.4	99.6	GSM184904	Arabidopsis, root cells, protophloem, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
21.2	99.6	GSM133773	Lindsey_1-25_torpedo-meristem_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.6	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.4	99.6	E-ATMX-35-raw-cel-1574334800
17.1	99.5	GSM131603	ATGE_41_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
17.1	99.5	E-MEXP-1443-raw-cel-1581869921
16.8	99.5	GSM131604	ATGE_41_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
16.2	99.5	GSM142740	DH001_ATH1_A7-MPG1	GSE6162	Transcriptome analysis of Arabidopsis microgametogenesis
15.9	99.5	E-ATMX-32-raw-cel-1562974681
15.6	99.5	E-MEXP-1443-raw-cel-1581869863
14.9	99.4	GSM131605	ATGE_41_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
12.8	99.3	E-ATMX-32-raw-cel-1562974409
12.4	99.3	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
11.7	99.3	GSM142804	SS001_ATH1_A7-Smith-10	GSE6174	Gene expression and carbohydrate metabolism through the diurnal cycle
11.5	99.3	GSM131539	ATGE_25_C	GSE5630	AtGenExpress: Developmental series (leaves)
10.7	99.2	GSM131538	ATGE_25_B	GSE5630	AtGenExpress: Developmental series (leaves)
10.4	99.2	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.3	99.2	GSM284387	Arabidopsis GSUS4b	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.2	99.2	E-MEXP-509-raw-cel-829148090
9.8	99.1	GSM131537	ATGE_25_A	GSE5630	AtGenExpress: Developmental series (leaves)
9.5	99.1	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.3	99.1	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
8.8	99.0	GSM204069	protoplast_hypoxia_rep1	GSE8248	Identification of hypoxia-inducible genes in Arabidopsis mesophyll cells

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

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	At1g20760
Gene name	calcium-binding EF hand family protein
Module size	7 genes
NF	0.67
%ile	86.9

Co-expression analysis

Gene ID At1g20760 Gene name calcium-binding EF hand family protein Module size 7 genes NF 0.67 %ile 86.9

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

SFGenesGO IDProcess NameLink to AmiGO

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 At1g20760

Gene name calcium-binding EF hand family protein

Module size 7 genes

NF 0.67

%ile 86.9

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

SF Genes GO ID Process Name Link to AmiGO

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