CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g53500

Gene name MUM4 (MUCILAGE-MODIFIED 4)

Module size 20 genes

NF 0.28

%ile 33.2

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
0.45 58.3 1.00 At1g53500 841785 MUM4 (MUCILAGE-MODIFIED 4) encodes a putative NDP-L-rhamnose synthase, an enzyme required for the synthesis of the pectin rhamnogalacturonan I, the major component of Arabidopsis mucilage. Gene is involved in seed coat mucilage cell development. Mutant analyses suggest that MUM4 is required for complete mucilage synthesis, cytoplasmic rearrangement and seed coat development. O.I. H.G. S.X.
0.50 65.3 0.74 At1g18150 838394 ATMPK8 ATMPK8, O.I. H.G. S.X.
0.42 53.9 0.73 At1g08030 837318 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB O.I. H.G. S.X.
0.41 52.4 0.75 At1g14560 838018 mitochondrial substrate carrier family protein F:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPO O.I. H.G. S.X.
0.40 50.8 0.73 At3g01040 821312 GAUT13 (Galacturonosyltransferase 13) Encodes a protein with putative galacturonosyltransferase activity. O.I. H.G. S.X.
0.40 50.8 0.74 At5g15470 831400 GAUT14 (Galacturonosyltransferase 14) Encodes a protein with putative galacturonosyltransferase activity. O.I. H.G. S.X.
0.39 48.4 0.73 At4g23490 828447 fringe-related protein F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;MFPO O.I. H.G. S.X.
0.39 48.4 0.76 At3g61590 825332 HWS (HAWAIIAN SKIRT) F:ubiquitin-protein ligase activity;P:organ development;C:cellular_component unknown;P O.I. H.G. S.X.
0.39 48.4 0.72 At2g17530 816260 protein kinase family protein F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFPBVA O.I. H.G. S.X.
0.37 45.0 0.74 At3g10540 820219 3-phosphoinositide-dependent protein kinase, putative F:kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MOPFBVA O.I. H.G. S.X.
0.37 45.0 0.74 At1g61770 842474 DNAJ heat shock N-terminal domain-containing protein J domain protein. O.I. H.G. S.X.
0.30 32.1 0.72 At3g51470 824310 protein phosphatase 2C, putative / PP2C, putative F:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVA O.I. H.G. S.X.
0.30 32.1 0.74 At2g47490 819362 mitochondrial substrate carrier family protein F:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOV O.I. H.G. S.X.
0.29 30.3 0.73 At1g06890 837199 transporter-related F:unknown;P:unknown;C:Golgi apparatus, membrane;PMFOBA O.I. H.G. S.X.
0.28 30.3 0.74 At3g54690 824634 sugar isomerase (SIS) domain-containing protein / CBS domain-containing protein F:isomerase activity, sugar binding;P:carbohydrate metabolic process;C:unknown;BOAFPMV O.I. H.G. S.X.
0.28 30.3 0.72 At2g41980 818798 seven in absentia (SINA) family protein F:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, ubiquitin-dependent protein catabolic process, protein ubiquitination;C:nucleus;MPOF O.I. H.G. S.X.
0.28 30.3 0.72 At4g26650 828772 RNA recognition motif (RRM)-containing protein F:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPOFBVA O.I. H.G. S.X.
0.16 8.8 0.72 At5g47180 834764 vesicle-associated membrane family protein / VAMP family protein F:structural molecule activity;P:unknown;C:plasma membrane;MPFO O.I. H.G. S.X.
0.15 7.8 0.72 At5g01800 831924 saposin B domain-containing protein F:molecular_function unknown;P:N-terminal protein myristoylation, lipid metabolic process;C:endomembrane system;MOP O.I. H.G. S.X.
0.07 1.9 0.76 At3g07940 819985 zinc finger and C2 domain protein, putative F:ARF GTPase activator activity, zinc ion binding;P:regulation of ARF GTPase activity;C:cellular_component unknown;MPFO O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.45	58.3	1.00	At1g53500	841785	MUM4 (MUCILAGE-MODIFIED 4)	encodes a putative NDP-L-rhamnose synthase, an enzyme required for the synthesis of the pectin rhamnogalacturonan I, the major component of Arabidopsis mucilage. Gene is involved in seed coat mucilage cell development. Mutant analyses suggest that MUM4 is required for complete mucilage synthesis, cytoplasmic rearrangement and seed coat development.	O.I.	H.G.	S.X.
0.50	65.3	0.74	At1g18150	838394	ATMPK8	ATMPK8,	O.I.	H.G.	S.X.
0.42	53.9	0.73	At1g08030	837318	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;POB	O.I.	H.G.	S.X.
0.41	52.4	0.75	At1g14560	838018	mitochondrial substrate carrier family protein	F:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPO	O.I.	H.G.	S.X.
0.40	50.8	0.73	At3g01040	821312	GAUT13 (Galacturonosyltransferase 13)	Encodes a protein with putative galacturonosyltransferase activity.	O.I.	H.G.	S.X.
0.40	50.8	0.74	At5g15470	831400	GAUT14 (Galacturonosyltransferase 14)	Encodes a protein with putative galacturonosyltransferase activity.	O.I.	H.G.	S.X.
0.39	48.4	0.73	At4g23490	828447	fringe-related protein	F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.39	48.4	0.76	At3g61590	825332	HWS (HAWAIIAN SKIRT)	F:ubiquitin-protein ligase activity;P:organ development;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.39	48.4	0.72	At2g17530	816260	protein kinase family protein	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFPBVA	O.I.	H.G.	S.X.
0.37	45.0	0.74	At3g10540	820219	3-phosphoinositide-dependent protein kinase, putative	F:kinase activity;P:protein amino acid phosphorylation;C:plasma membrane;MOPFBVA	O.I.	H.G.	S.X.
0.37	45.0	0.74	At1g61770	842474	DNAJ heat shock N-terminal domain-containing protein	J domain protein.	O.I.	H.G.	S.X.
0.30	32.1	0.72	At3g51470	824310	protein phosphatase 2C, putative / PP2C, putative	F:protein serine/threonine phosphatase activity, catalytic activity;P:protein amino acid dephosphorylation;C:protein serine/threonine phosphatase complex;MPOFBVA	O.I.	H.G.	S.X.
0.30	32.1	0.74	At2g47490	819362	mitochondrial substrate carrier family protein	F:transporter activity, binding;P:transport, mitochondrial transport;C:endomembrane system, mitochondrial inner membrane, membrane;MFPOV	O.I.	H.G.	S.X.
0.29	30.3	0.73	At1g06890	837199	transporter-related	F:unknown;P:unknown;C:Golgi apparatus, membrane;PMFOBA	O.I.	H.G.	S.X.
0.28	30.3	0.74	At3g54690	824634	sugar isomerase (SIS) domain-containing protein / CBS domain-containing protein	F:isomerase activity, sugar binding;P:carbohydrate metabolic process;C:unknown;BOAFPMV	O.I.	H.G.	S.X.
0.28	30.3	0.72	At2g41980	818798	seven in absentia (SINA) family protein	F:ubiquitin-protein ligase activity, protein binding, zinc ion binding;P:multicellular organismal development, ubiquitin-dependent protein catabolic process, protein ubiquitination;C:nucleus;MPOF	O.I.	H.G.	S.X.
0.28	30.3	0.72	At4g26650	828772	RNA recognition motif (RRM)-containing protein	F:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MPOFBVA	O.I.	H.G.	S.X.
0.16	8.8	0.72	At5g47180	834764	vesicle-associated membrane family protein / VAMP family protein	F:structural molecule activity;P:unknown;C:plasma membrane;MPFO	O.I.	H.G.	S.X.
0.15	7.8	0.72	At5g01800	831924	saposin B domain-containing protein	F:molecular_function unknown;P:N-terminal protein myristoylation, lipid metabolic process;C:endomembrane system;MOP	O.I.	H.G.	S.X.
0.07	1.9	0.76	At3g07940	819985	zinc finger and C2 domain protein, putative	F:ARF GTPase activator activity, zinc ion binding;P:regulation of ARF GTPase activity;C:cellular_component unknown;MPFO	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
127.3 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
72.2 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.1 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
59.8 99.8 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
45.1 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
42.6 99.8 GSM133774 Lindsey_1-26_torpedo-meristem_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.5 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
42.0 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.9 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.4 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.3 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
40.7 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.2 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
38.0 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.5 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.5 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.4 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
36.6 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.5 99.7 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
34.6 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.8 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.7 99.7 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.3 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
23.1 99.6 GSM13779 Dexamethasone plus cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
22.8 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
22.5 99.6 E-MEXP-509-raw-cel-829148456
19.5 99.6 E-MEXP-509-raw-cel-829148348
19.2 99.6 E-MEXP-509-raw-cel-829148561
18.6 99.5 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.1 99.5 GSM133760 Lindsey_1-12_heart-stage-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.2 99.5 GSM13780 Cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
15.6 99.5 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
15.0 99.4 GSM13783 Dexamethasone plus cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
14.0 99.4 GSM184908 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
13.7 99.4 GSM184907 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
13.6 99.4 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
12.1 99.3 GSM133768 Lindsey_1-20_torpedo-basal_Rep5_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.9 99.3 GSM133968 Birnbaum_1-19_LRC-1_Rep1_ATH1 GSE5749 A gene expression map of the Arabidopsis root
11.4 99.3 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.1 99.2 GSM184892 Arabidopsis, root cells, columella root cap, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
10.9 99.2 E-MEXP-509-raw-cel-829148420
10.8 99.2 GSM131325 AtGen_6-3521_Saltstress-Roots-12.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
10.3 99.2 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2 99.2 E-MEXP-509-raw-cel-829148525
9.5 99.1 GSM133989 Birnbaum_1-22_gl2-1_Rep1_ATH1 GSE5749 A gene expression map of the Arabidopsis root
9.5 99.1 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
9.0 99.1 E-MEXP-509-raw-cel-829148129
8.9 99.0 GSM133117 RIKEN-YAMAUCHI1A GSE5687 AtGenExpress: Different temperature treatment of seeds
8.6 99.0 GSM184909 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
127.3	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
72.2	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.1	99.8	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
59.8	99.8	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
45.1	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
42.6	99.8	GSM133774	Lindsey_1-26_torpedo-meristem_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
42.5	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
42.0	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.9	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.4	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.3	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
40.7	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.2	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
38.0	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.5	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.5	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.4	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
36.6	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.5	99.7	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
34.6	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.8	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.7	99.7	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.3	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
23.1	99.6	GSM13779	Dexamethasone plus cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
22.8	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
22.5	99.6	E-MEXP-509-raw-cel-829148456
19.5	99.6	E-MEXP-509-raw-cel-829148348
19.2	99.6	E-MEXP-509-raw-cel-829148561
18.6	99.5	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.1	99.5	GSM133760	Lindsey_1-12_heart-stage-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.2	99.5	GSM13780	Cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
15.6	99.5	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
15.0	99.4	GSM13783	Dexamethasone plus cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
14.0	99.4	GSM184908	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
13.7	99.4	GSM184907	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
13.6	99.4	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
12.1	99.3	GSM133768	Lindsey_1-20_torpedo-basal_Rep5_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.9	99.3	GSM133968	Birnbaum_1-19_LRC-1_Rep1_ATH1	GSE5749	A gene expression map of the Arabidopsis root
11.4	99.3	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.1	99.2	GSM184892	Arabidopsis, root cells, columella root cap, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
10.9	99.2	E-MEXP-509-raw-cel-829148420
10.8	99.2	GSM131325	AtGen_6-3521_Saltstress-Roots-12.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
10.3	99.2	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2	99.2	E-MEXP-509-raw-cel-829148525
9.5	99.1	GSM133989	Birnbaum_1-22_gl2-1_Rep1_ATH1	GSE5749	A gene expression map of the Arabidopsis root
9.5	99.1	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
9.0	99.1	E-MEXP-509-raw-cel-829148129
8.9	99.0	GSM133117	RIKEN-YAMAUCHI1A	GSE5687	AtGenExpress: Different temperature treatment of seeds
8.6	99.0	GSM184909	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.095 1 GO:0010192 The chemical reactions and pathways resulting in the formation of mucilage, a gelatinous substance secreted by plants.
0.091 1 GO:0043132 The directed movement of nicotinamide adenine dinucleotide into, out of, within or between cells; transport may be of either the oxidized form, NAD, or the reduced form, NADH.
0.083 1 GO:0010253 The chemical reactions and pathways resulting in the formation of UDP-L-rhamnose, a substance composed of rhamnose in glycosidic linkage with uridine diphosphate.

SF	Genes	GO ID	Process Name
0.095	1	GO:0010192	The chemical reactions and pathways resulting in the formation of mucilage, a gelatinous substance secreted by plants.
0.091	1	GO:0043132	The directed movement of nicotinamide adenine dinucleotide into, out of, within or between cells; transport may be of either the oxidized form, NAD, or the reduced form, NADH.
0.083	1	GO:0010253	The chemical reactions and pathways resulting in the formation of UDP-L-rhamnose, a substance composed of rhamnose in glycosidic linkage with uridine diphosphate.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.022 1 00520 Amino sugar and nucleotide sugar metabolism
0.017 1 04120 Ubiquitin mediated proteolysis

SF	Genes	KEGG ID	Pathway name	Link to KEGG
0.022	1	00520	Amino sugar and nucleotide sugar metabolism
0.017	1	04120	Ubiquitin mediated proteolysis

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	At1g53500
Gene name	MUM4 (MUCILAGE-MODIFIED 4)
Module size	20 genes
NF	0.28
%ile	33.2

Co-expression analysis

Gene ID At1g53500 Gene name MUM4 (MUCILAGE-MODIFIED 4) Module size 20 genes NF 0.28 %ile 33.2

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 KEGG0.022100520Amino sugar and nucleotide sugar metabolism0.017104120Ubiquitin mediated proteolysis

Inter-species module comparison

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

Gene ID At1g53500

Gene name MUM4 (MUCILAGE-MODIFIED 4)

Module size 20 genes

NF 0.28

%ile 33.2

: 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
0.022 1 00520 Amino sugar and nucleotide sugar metabolism
0.017 1 04120 Ubiquitin mediated proteolysis

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