CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g52390

Gene name photoassimilate-responsive protein, putative

Module size 6 genes

NF 0.47

%ile 66.3

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
0.50 65.3 1.00 At5g52390 835315 photoassimilate-responsive protein, putative F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.67 81.6 0.69 At5g23970 832462 transferase family protein F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFB O.I. H.G. S.X.
0.53 68.6 0.54 At5g06720 830561 peroxidase, putative F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOMV O.I. H.G. S.X.
0.44 57.2 0.47 At1g16950 838266 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.40 50.8 0.52 At1g68320 843161 MYB62 (myb domain protein 62) putative transcription factor: R2R3-MYB transcription family O.I. H.G. S.X.
0.35 41.6 0.50 At5g05340 830416 peroxidase, putative F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:apoplast, cell wall;PFOBM O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.50	65.3	1.00	At5g52390	835315	photoassimilate-responsive protein, putative	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.67	81.6	0.69	At5g23970	832462	transferase family protein	F:transferase activity, transferring acyl groups other than amino-acyl groups, transferase activity;P:biological_process unknown;C:cellular_component unknown;PFB	O.I.	H.G.	S.X.
0.53	68.6	0.54	At5g06720	830561	peroxidase, putative	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOMV	O.I.	H.G.	S.X.
0.44	57.2	0.47	At1g16950	838266	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.40	50.8	0.52	At1g68320	843161	MYB62 (myb domain protein 62)	putative transcription factor: R2R3-MYB transcription family	O.I.	H.G.	S.X.
0.35	41.6	0.50	At5g05340	830416	peroxidase, putative	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:apoplast, cell wall;PFOBM	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
92.1 99.9 GSM184923 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
87.0 99.9 GSM270868 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
78.2 99.9 GSM311289 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
75.8 99.9 GSM270870 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
73.7 99.9 GSM311290 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
59.6 99.8 GSM311288 Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
56.8 99.8 E-ATMX-35-raw-cel-1574334816
56.2 99.8 E-ATMX-35-raw-cel-1574334800
55.9 99.8 E-ATMX-35-raw-cel-1574334832
52.7 99.8 GSM184922 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
48.5 99.8 GSM184904 Arabidopsis, root cells, protophloem, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
45.6 99.8 GSM184924 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
40.8 99.8 GSM311287 Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
23.8 99.6 GSM284391 Arabidopsis GPE3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
18.3 99.5 GSM284387 Arabidopsis GSUS4b GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.6 99.4 GSM184906 Arabidopsis, root cells, protophloem, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
14.1 99.4 GSM133759 Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.8 99.4 GSM133965 Fukuda_1-10_8B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.5 99.4 GSM133963 Fukuda_1-8_6B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.3 99.4 GSM284386 Arabidopsis GSUS3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.2 99.4 GSM133967 Fukuda_1-12_10B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.1 99.4 GSM284388 Arabidopsis GMPE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
12.9 99.3 GSM133964 Fukuda_1-9_8A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.9 99.3 GSM133962 Fukuda_1-7_6A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.8 99.3 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
12.8 99.3 GSM133966 Fukuda_1-11_10A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.5 99.3 GSM133775 Lindsey_1-27_torpedo-meristem_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0 99.3 GSM133960 Fukuda_1-5_4A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
11.7 99.3 GSM133961 Fukuda_1-6_4B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
11.6 99.3 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.0 99.2 E-MEXP-807-raw-cel-1173273252
11.0 99.2 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.4 99.2 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.2 99.2 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.5 99.1 GSM311295 Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
8.6 99.0 GSM311277 Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
92.1	99.9	GSM184923	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
87.0	99.9	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
78.2	99.9	GSM311289	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
75.8	99.9	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
73.7	99.9	GSM311290	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
59.6	99.8	GSM311288	Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
56.8	99.8	E-ATMX-35-raw-cel-1574334816
56.2	99.8	E-ATMX-35-raw-cel-1574334800
55.9	99.8	E-ATMX-35-raw-cel-1574334832
52.7	99.8	GSM184922	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
48.5	99.8	GSM184904	Arabidopsis, root cells, protophloem, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
45.6	99.8	GSM184924	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
40.8	99.8	GSM311287	Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
23.8	99.6	GSM284391	Arabidopsis GPE3	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
18.3	99.5	GSM284387	Arabidopsis GSUS4b	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.6	99.4	GSM184906	Arabidopsis, root cells, protophloem, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
14.1	99.4	GSM133759	Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.8	99.4	GSM133965	Fukuda_1-10_8B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.5	99.4	GSM133963	Fukuda_1-8_6B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.3	99.4	GSM284386	Arabidopsis GSUS3	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.2	99.4	GSM133967	Fukuda_1-12_10B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.1	99.4	GSM284388	Arabidopsis GMPE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
12.9	99.3	GSM133964	Fukuda_1-9_8A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.9	99.3	GSM133962	Fukuda_1-7_6A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.8	99.3	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
12.8	99.3	GSM133966	Fukuda_1-11_10A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
12.5	99.3	GSM133775	Lindsey_1-27_torpedo-meristem_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0	99.3	GSM133960	Fukuda_1-5_4A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
11.7	99.3	GSM133961	Fukuda_1-6_4B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
11.6	99.3	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.0	99.2	E-MEXP-807-raw-cel-1173273252
11.0	99.2	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.4	99.2	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.2	99.2	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.5	99.1	GSM311295	Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
8.6	99.0	GSM311277	Laser capture microdissected (LCM) peripheral endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.017 1 GO:0009751 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 salicylic acid stimulus.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.017	1	GO:0009751	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 salicylic acid stimulus.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.047 2 00360 Phenylalanine metabolism
0.046 2 00680 Methane metabolism
0.037 2 00940 Phenylpropanoid biosynthesis
0.016 2 01061 Biosynthesis of phenylpropanoids
0.003 2 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.047	2	00360	Phenylalanine metabolism
0.046	2	00680	Methane metabolism
0.037	2	00940	Phenylpropanoid biosynthesis
0.016	2	01061	Biosynthesis of phenylpropanoids
0.003	2	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	At5g52390
Gene name	photoassimilate-responsive protein, putative
Module size	6 genes
NF	0.47
%ile	66.3

Co-expression analysis

Gene ID At5g52390 Gene name photoassimilate-responsive protein, putative Module size 6 genes NF 0.47 %ile 66.3

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 AmiGO0.0171GO:0009751A 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 salicylic acid stimulus.

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.047200360Phenylalanine metabolism0.046200680Methane metabolism0.037200940Phenylpropanoid biosynthesis0.016201061Biosynthesis of phenylpropanoids0.003201100Metabolic 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 At5g52390

Gene name photoassimilate-responsive protein, putative

Module size 6 genes

NF 0.47

%ile 66.3

: 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
0.017 1 GO:0009751 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 salicylic acid stimulus.

SF Genes KEGG ID Pathway name Link to KEGG
0.047 2 00360 Phenylalanine metabolism
0.046 2 00680 Methane metabolism
0.037 2 00940 Phenylpropanoid biosynthesis
0.016 2 01061 Biosynthesis of phenylpropanoids
0.003 2 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