CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g45650

Gene name AGL6 (AGAMOUS-LIKE 6)

Module size 5 genes

NF 0.68

%ile 87.7

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
0.36 43.6 1.00 At2g45650 819173 AGL6 (AGAMOUS-LIKE 6) sequence suggests this encodes a MADS-box transcription factor O.I. H.G. S.X.
0.89 94.6 0.66 At2g36190 818191 AtcwINV4 (Arabidopsis thaliana cell wall invertase 4) F:hydrolase activity, hydrolyzing O-glycosyl compounds;P:sucrose catabolic process, using beta-fructofuranosidase, carbohydrate metabolic process;C:endomembrane system;BPFOMA O.I. H.G. S.X.
0.80 89.8 0.67 At3g28007 822424 nodulin MtN3 family protein F:unknown;P:unknown;C:endomembrane system, integral to membrane, membrane;PMOB O.I. H.G. S.X.
0.75 86.9 0.58 At3g25810 822173 myrcene/ocimene synthase, putative F:in 7 functions;P:monoterpene biosynthetic process;C:plastid;PO O.I. H.G. S.X.
0.67 81.6 0.54 At2g39060 818492 nodulin MtN3 family protein F:unknown;P:biological_process unknown;C:endomembrane system, integral to membrane, membrane;PMO O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.36	43.6	1.00	At2g45650	819173	AGL6 (AGAMOUS-LIKE 6)	sequence suggests this encodes a MADS-box transcription factor	O.I.	H.G.	S.X.
0.89	94.6	0.66	At2g36190	818191	AtcwINV4 (Arabidopsis thaliana cell wall invertase 4)	F:hydrolase activity, hydrolyzing O-glycosyl compounds;P:sucrose catabolic process, using beta-fructofuranosidase, carbohydrate metabolic process;C:endomembrane system;BPFOMA	O.I.	H.G.	S.X.
0.80	89.8	0.67	At3g28007	822424	nodulin MtN3 family protein	F:unknown;P:unknown;C:endomembrane system, integral to membrane, membrane;PMOB	O.I.	H.G.	S.X.
0.75	86.9	0.58	At3g25810	822173	myrcene/ocimene synthase, putative	F:in 7 functions;P:monoterpene biosynthetic process;C:plastid;PO	O.I.	H.G.	S.X.
0.67	81.6	0.54	At2g39060	818492	nodulin MtN3 family protein	F:unknown;P:biological_process unknown;C:endomembrane system, integral to membrane, membrane;PMO	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
123.3 99.9 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
73.3 99.9 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
63.2 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.0 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.3 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.6 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.4 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.1 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
56.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.8 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.7 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
46.5 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
44.9 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.6 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.7 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
40.6 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
38.9 99.8 GSM176880 AWP_Control_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
36.2 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
27.1 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
26.6 99.7 GSM131321 AtGen_6-3421_Saltstress-Roots-6.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
23.0 99.6 GSM131322 AtGen_6-3422_Saltstress-Roots-6.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
20.5 99.6 E-MEXP-98-raw-cel-320189024
20.4 99.6 E-MEXP-807-raw-cel-1173272948
19.9 99.6 GSM13784 Cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
19.2 99.6 E-MEXP-98-raw-cel-320188804
18.9 99.5 E-MEXP-98-raw-cel-320188859
16.5 99.5 E-MEXP-807-raw-cel-1173273170
16.3 99.5 GSM13783 Dexamethasone plus cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
15.7 99.5 GSM131325 AtGen_6-3521_Saltstress-Roots-12.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
15.3 99.4 E-MEXP-546-raw-cel-863289532
14.6 99.4 E-MEXP-98-raw-cel-320189079
14.5 99.4 E-MEXP-1443-raw-cel-1581869921
14.4 99.4 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
14.3 99.4 GSM131318 AtGen_6-3322_Saltstress-Roots-3.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
14.2 99.4 GSM13780 Cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
13.1 99.4 GSM13779 Dexamethasone plus cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
13.1 99.4 E-MEXP-546-raw-cel-863289476
12.7 99.3 GSM131120 AtGen_B-6_1-6-1_REP_1_ATH1 GSE5615 AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
12.0 99.3 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
11.7 99.3 E-MEXP-509-raw-cel-829148561
11.5 99.3 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.5 99.3 E-MEXP-807-raw-cel-1173273116
11.4 99.3 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.7 99.2 E-MEXP-807-raw-cel-1173273088
10.3 99.2 E-MEXP-807-raw-cel-1173273060
10.3 99.2 GSM128676 Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.1 99.2 GSM131317 AtGen_6-3321_Saltstress-Roots-3.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
10.0 99.2 E-MEXP-807-raw-cel-1173273223
9.9 99.1 GSM131329 AtGen_6-3621_Saltstress-Roots-24.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
9.5 99.1 E-MEXP-509-raw-cel-829148597
9.0 99.1 GSM142839 MG001_ATH1_A18-Torres-6N6 GSE6176 Impact of Type III effectors on plant defense responses
8.9 99.0 E-MEXP-509-raw-cel-829148090
8.9 99.0 E-MEXP-546-raw-cel-863289424
8.6 99.0 GSM176878 AWP_AL_Txed_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
123.3	99.9	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
73.3	99.9	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
63.2	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.0	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.3	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.6	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.4	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.1	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
56.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.8	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.7	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.5	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
46.5	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
44.9	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.6	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.7	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
40.6	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
38.9	99.8	GSM176880	AWP_Control_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
36.2	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
27.1	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
26.6	99.7	GSM131321	AtGen_6-3421_Saltstress-Roots-6.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
23.0	99.6	GSM131322	AtGen_6-3422_Saltstress-Roots-6.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
20.5	99.6	E-MEXP-98-raw-cel-320189024
20.4	99.6	E-MEXP-807-raw-cel-1173272948
19.9	99.6	GSM13784	Cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
19.2	99.6	E-MEXP-98-raw-cel-320188804
18.9	99.5	E-MEXP-98-raw-cel-320188859
16.5	99.5	E-MEXP-807-raw-cel-1173273170
16.3	99.5	GSM13783	Dexamethasone plus cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
15.7	99.5	GSM131325	AtGen_6-3521_Saltstress-Roots-12.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
15.3	99.4	E-MEXP-546-raw-cel-863289532
14.6	99.4	E-MEXP-98-raw-cel-320189079
14.5	99.4	E-MEXP-1443-raw-cel-1581869921
14.4	99.4	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
14.3	99.4	GSM131318	AtGen_6-3322_Saltstress-Roots-3.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
14.2	99.4	GSM13780	Cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
13.1	99.4	GSM13779	Dexamethasone plus cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
13.1	99.4	E-MEXP-546-raw-cel-863289476
12.7	99.3	GSM131120	AtGen_B-6_1-6-1_REP_1_ATH1	GSE5615	AtGenExpress: Response to bacterial-(LPS, HrpZ, Flg22) and oomycete-(NPP1) derived elicitors
12.0	99.3	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
11.7	99.3	E-MEXP-509-raw-cel-829148561
11.5	99.3	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.5	99.3	E-MEXP-807-raw-cel-1173273116
11.4	99.3	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.7	99.2	E-MEXP-807-raw-cel-1173273088
10.3	99.2	E-MEXP-807-raw-cel-1173273060
10.3	99.2	GSM128676	Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.1	99.2	GSM131317	AtGen_6-3321_Saltstress-Roots-3.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
10.0	99.2	E-MEXP-807-raw-cel-1173273223
9.9	99.1	GSM131329	AtGen_6-3621_Saltstress-Roots-24.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
9.5	99.1	E-MEXP-509-raw-cel-829148597
9.0	99.1	GSM142839	MG001_ATH1_A18-Torres-6N6	GSE6176	Impact of Type III effectors on plant defense responses
8.9	99.0	E-MEXP-509-raw-cel-829148090
8.9	99.0	E-MEXP-546-raw-cel-863289424
8.6	99.0	GSM176878	AWP_AL_Txed_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0043693 The chemical reactions and pathways resulting in the formation of monoterpenes, terpenes with a C10 structure.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.286	1	GO:0043693	The chemical reactions and pathways resulting in the formation of monoterpenes, terpenes with a C10 structure.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.222 1 00902 Monoterpenoid biosynthesis
0.053 1 00052 Galactose metabolism
0.022 1 00500 Starch and sucrose metabolism

SF	Genes	KEGG ID	Pathway name
0.222	1	00902	Monoterpenoid biosynthesis
0.053	1	00052	Galactose metabolism
0.022	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

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Gene ID	At2g45650
Gene name	AGL6 (AGAMOUS-LIKE 6)
Module size	5 genes
NF	0.68
%ile	87.7

Co-expression analysis

Gene ID At2g45650 Gene name AGL6 (AGAMOUS-LIKE 6) Module size 5 genes NF 0.68 %ile 87.7

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

SFGenesGO IDProcess NameLink to AmiGO0.2861GO:0043693The chemical reactions and pathways resulting in the formation of monoterpenes, terpenes with a C10 structure.

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.222100902Monoterpenoid biosynthesis0.053100052Galactose metabolism0.022100500Starch 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 At2g45650

Gene name AGL6 (AGAMOUS-LIKE 6)

Module size 5 genes

NF 0.68

%ile 87.7

: 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
0.286 1 GO:0043693 The chemical reactions and pathways resulting in the formation of monoterpenes, terpenes with a C10 structure.

SF Genes KEGG ID Pathway name Link to KEGG
0.222 1 00902 Monoterpenoid biosynthesis
0.053 1 00052 Galactose metabolism
0.022 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