CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g57906

Gene name -

Module size 21 genes

NF 0.72

%ile 90.3

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
0.48 62.5 1.00 At1g57906 842163 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.91 95.6 0.94 At3g28280 822454 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.86 93.1 0.92 At2g01500 814678 PFS2 (PRETTY FEW SEEDS 2) PFS2 encodes a homeodomain gene that is a member of the WUS clade of transcription factors. It delays differentiation and maturation of primordia and regulates ovule patterning. The pfs2 mutant exhibits developmental defects in the maternal integuments and gametophyte, specifically, the boundary between the chalaza and the nucellus shifted towards the distal end of pfs2 ovule primordia. In addition, leaves displayed curling and petals were wavy and crenulated. Overexpression of PFS2 affects floral organ and leaf development. Single- and double-mutant analyses reveal that PFS2 activity represses AGAMOUS expression in young floral primordia. Also involved in regulation of response to low temperature. O.I. H.G. S.X.
0.85 92.4 0.90 At2g40440 818638 BTB/POZ domain-containing protein F:protein binding;P:biological_process unknown;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.81 90.4 0.90 At2g33160 817877 glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein F:polygalacturonase activity, nucleic acid binding;P:carbohydrate metabolic process;C:endomembrane system;PFBOMA O.I. H.G. S.X.
0.80 89.8 0.90 At4g25510 828655 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.79 89.1 0.93 At5g44330 834458 male sterility MS5 family protein F:binding;P:biological_process unknown;C:unknown;POBA O.I. H.G. S.X.
0.78 88.6 0.92 At4g02970 828121 AT7SL-1 (Arabidopsis 7SL RNA 1) Signal recognition particle. Type 4 of RNA polymerase III dependent genes. O.I. H.G. S.X.
0.78 88.6 0.90 At4g16050 827290 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVA O.I. H.G. S.X.
0.78 88.6 0.92 At1g29730 839851 ATP binding / kinase/ protein binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase F:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVA O.I. H.G. S.X.
0.75 86.9 0.94 At1g52430 841674 ubiquitin carboxyl-terminal hydrolase-related F:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;POBMF O.I. H.G. S.X.
0.75 86.9 0.90 At3g57900 824959 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.74 86.1 0.90 At2g13640 815849 Golgi GDP mannose transporter (GONST1) F:unknown;P:transcription;C:nucleus;OMBPFVA O.I. H.G. S.X.
0.72 84.8 0.93 At1g11690 837713 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.71 84.2 0.90 At3g04990 819659 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.71 84.2 0.92 At1g50800 841502 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOMFV O.I. H.G. S.X.
0.70 83.5 0.92 At1g46912 841119 F-box family protein-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.70 83.5 0.90 At5g66370 836769 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POF O.I. H.G. S.X.
0.63 78.1 0.90 At5g18160 831934 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.61 76.7 0.91 At1g29570 839834 zinc finger protein-related F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOBFPVA O.I. H.G. S.X.
0.55 70.6 0.94 At3g19070 821441 cell wall protein-related F:transcription factor activity;P:regulation of transcription;C:unknown;OMFPBVA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.48	62.5	1.00	At1g57906	842163	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.91	95.6	0.94	At3g28280	822454	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.86	93.1	0.92	At2g01500	814678	PFS2 (PRETTY FEW SEEDS 2)	PFS2 encodes a homeodomain gene that is a member of the WUS clade of transcription factors. It delays differentiation and maturation of primordia and regulates ovule patterning. The pfs2 mutant exhibits developmental defects in the maternal integuments and gametophyte, specifically, the boundary between the chalaza and the nucellus shifted towards the distal end of pfs2 ovule primordia. In addition, leaves displayed curling and petals were wavy and crenulated. Overexpression of PFS2 affects floral organ and leaf development. Single- and double-mutant analyses reveal that PFS2 activity represses AGAMOUS expression in young floral primordia. Also involved in regulation of response to low temperature.	O.I.	H.G.	S.X.
0.85	92.4	0.90	At2g40440	818638	BTB/POZ domain-containing protein	F:protein binding;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	H.G.	S.X.
0.81	90.4	0.90	At2g33160	817877	glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein	F:polygalacturonase activity, nucleic acid binding;P:carbohydrate metabolic process;C:endomembrane system;PFBOMA	O.I.	H.G.	S.X.
0.80	89.8	0.90	At4g25510	828655	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.79	89.1	0.93	At5g44330	834458	male sterility MS5 family protein	F:binding;P:biological_process unknown;C:unknown;POBA	O.I.	H.G.	S.X.
0.78	88.6	0.92	At4g02970	828121	AT7SL-1 (Arabidopsis 7SL RNA 1)	Signal recognition particle. Type 4 of RNA polymerase III dependent genes.	O.I.	H.G.	S.X.
0.78	88.6	0.90	At4g16050	827290	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMFPBVA	O.I.	H.G.	S.X.
0.78	88.6	0.92	At1g29730	839851	ATP binding / kinase/ protein binding / protein kinase/ protein serine/threonine kinase/ protein tyrosine kinase	F:in 6 functions;P:protein amino acid phosphorylation;C:endomembrane system;PMOBFVA	O.I.	H.G.	S.X.
0.75	86.9	0.94	At1g52430	841674	ubiquitin carboxyl-terminal hydrolase-related	F:ubiquitin thiolesterase activity;P:ubiquitin-dependent protein catabolic process;C:cellular_component unknown;POBMF	O.I.	H.G.	S.X.
0.75	86.9	0.90	At3g57900	824959	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.74	86.1	0.90	At2g13640	815849	Golgi GDP mannose transporter (GONST1)	F:unknown;P:transcription;C:nucleus;OMBPFVA	O.I.	H.G.	S.X.
0.72	84.8	0.93	At1g11690	837713	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.71	84.2	0.90	At3g04990	819659	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.71	84.2	0.92	At1g50800	841502	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBOMFV	O.I.	H.G.	S.X.
0.70	83.5	0.92	At1g46912	841119	F-box family protein-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.70	83.5	0.90	At5g66370	836769	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POF	O.I.	H.G.	S.X.
0.63	78.1	0.90	At5g18160	831934	F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.61	76.7	0.91	At1g29570	839834	zinc finger protein-related	F:zinc ion binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOBFPVA	O.I.	H.G.	S.X.
0.55	70.6	0.94	At3g19070	821441	cell wall protein-related	F:transcription factor activity;P:regulation of transcription;C:unknown;OMFPBVA	O.I.	H.G.	S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.86	93.1	0.88	At5g26620	832728	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.78	88.6	0.89	At2g13900	815874	DC1 domain-containing protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;PMO	O.I.	H.G.	S.X.
0.78	88.6	0.90	At4g22065	3769974	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.78	88.6	0.86	At4g22020	3770103	-	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.78	88.6	0.86	At1g33670	840258	leucine-rich repeat family protein	F:protein binding;P:signal transduction;C:endomembrane system;PMOBFA	O.I.	H.G.	S.X.
0.77	88.0	0.84	At3g03290	821301	universal stress protein (USP) family protein	F:molecular_function unknown;P:response to stress;C:unknown;PMOF	O.I.	H.G.	S.X.
0.75	86.9	0.88	At5g14560	831307	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.75	86.9	0.87	At1g20530	838641	unknown protein	F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;OMPBFA	O.I.	H.G.	S.X.
0.73	85.5	0.95	At1g33820	840277	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBP	O.I.	H.G.	S.X.
0.72	84.8	0.88	At1g18050	838385	SWAP (Suppressor-of-White-APricot)/surp domain-containing protein	F:RNA binding;P:RNA processing;C:cellular_component unknown;MPOF	O.I.	H.G.	S.X.
0.72	84.8	0.89	At5g27810	832843	sequence-specific DNA binding / transcription factor	F:transcription factor activity, sequence-specific DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;P	O.I.	H.G.	S.X.
0.71	84.2	0.89	At2g24410	816977	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.71	84.2	0.88	At4g14670	827117	CLPB2	This locus was originally annotated as encoding ClpB2 (also referred to as Hsp92.7), which belongs to the Casein lytic proteinase/heat shock protein 100 (Clp/Hsp100) family. However, according to Lee et al. (2007, Plant Journal, 49:115-127), there is no evidence for expression of an appropriate-sized mRNA from this locus. Re-annotation of the genome indicates that this locus potentially encodes a 68.8-kDa protein, containing only the N-terminal two thirds of the originally predicted open reading frame. This locus contains a 626-bp deletion in WS ecotype compared with the Col ecotype, which eliminates residues 1-86 of the predicted protein.	O.I.	H.G.	S.X.
0.71	84.2	0.91	At5g37860	833764	copper-binding family protein	F:copper ion binding, metal ion binding;P:copper ion transport, metal ion transport;C:cellular_component unknown;POBFM	O.I.	H.G.	S.X.
0.71	84.2	0.81	At4g09080	826486	TOC75-IV	Component of the translocon outer membrane (TOC) complex. Forms the outer envelope translocation channel (beta-barrel). Plays a role in preprotein conductance. Imported into chloroplast. Knockout mutants have abnormal etioplasts.	O.I.	H.G.	S.X.
0.70	83.5	0.89	At1g54880	841927	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.68	82.2	0.86	At4g01030	827926	pentatricopeptide (PPR) repeat-containing protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;POMFBA	O.I.	H.G.	S.X.
0.67	81.6	0.87	At2g33010	817863	ubiquitin-associated (UBA)/TS-N domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMF	O.I.	H.G.	S.X.
0.67	81.6	0.82	At3g56380	824805	ARR17 (ARABIDOPSIS RESPONSE REGULATOR 17)	response regulator 17	O.I.	H.G.	S.X.
0.67	81.6	0.84	At3g20180	821562	metal ion binding	F:metal ion binding;P:metal ion transport;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.66	80.1	0.87	At1g32650	840159	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown	O.I.	H.G.	S.X.
0.65	79.6	0.79	At5g60110	836133	APUM18 (Arabidopsis Pumilio 18)	F:RNA binding, binding;P:unknown;C:chloroplast;OPFM	O.I.	H.G.	S.X.
0.65	79.6	0.85	At2g32050	817765	cell cycle control protein-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOP	O.I.	H.G.	S.X.
0.65	79.6	0.84	At1g30140	839894	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PF	O.I.	H.G.	S.X.
0.65	79.6	0.86	At3g25185		-	-	O.I.	H.G.	S.X.
0.64	78.9	0.87	At2g34580	818022	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OMBFPAV	O.I.	H.G.	S.X.
0.64	78.9	0.89	At2g34800	818045	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.63	78.1	0.85	At4g19570	827699	DNAJ heat shock N-terminal domain-containing protein	F:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFVA	O.I.	H.G.	S.X.
0.63	78.1	0.87	At2g20510	816572	ATTIM44-1	One of two loci encoding the TIM44 subunit of the mitochondrial inner membrane translocase complex. TIM44 subunit is the part of the complex that hydrolyzes ATP to provide energy for protein translocation to the inner membrane.	O.I.	H.G.	S.X.
0.63	78.1	0.92	At4g08450	826403	disease resistance protein (TIR-NBS-LRR class), putative	F:transmembrane receptor activity, nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:signal transduction, defense response, apoptosis, innate immune response;C:intrinsic to membrane;BPOMFVA	O.I.	H.G.	S.X.
0.63	78.1	0.87	At5g44470	834474	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.63	78.1	0.84	At2g18540	816369	cupin family protein	F:nutrient reservoir activity;P:biological_process unknown;C:endomembrane system;MOBFPVA	O.I.	H.G.	S.X.
0.62	77.3	0.87	At4g26020	828708	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.61	76.7	0.85	At1g34100	3766911	-	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.61	76.7	0.72	At3g60650	825236	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.61	76.7	0.85	At3g49170	824078	EMB2261 (embryo defective 2261)	F:unknown;P:embryonic development ending in seed dormancy;C:chloroplast;POMFB	O.I.	H.G.	S.X.
0.60	75.7	0.82	At1g11920	837742	pectate lyase family protein	F:lyase activity, pectate lyase activity;P:biological_process unknown;C:endomembrane system;BPFO	O.I.	H.G.	S.X.
0.60	75.7	0.89	At2g16200	816117	protein binding / structural molecule	F:protein binding, structural molecule activity;P:intracellular protein transport, vesicle-mediated transport;C:membrane coat, Golgi-associated vesicle;PO	O.I.	H.G.	S.X.
0.60	75.7	0.87	At4g21950	828284	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.59	74.7	0.86	At3g06970	819882	RNA binding / nucleic acid binding / nucleotide binding	F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPOFBV	O.I.	H.G.	S.X.
0.59	74.7	0.86	At2g36610	818233	ATHB22 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 22)	Encodes a homeodomain leucine zipper class I (HD-Zip I) protein.	O.I.	H.G.	S.X.
0.59	74.7	0.89	At4g22500		-	-	O.I.	H.G.	S.X.
0.58	73.8	0.92	At1g09410	837463	pentatricopeptide (PPR) repeat-containing protein	F:unknown;P:biological_process unknown;C:unknown;POMFB	O.I.	H.G.	S.X.
0.58	73.8	0.89	At2g30430	817594	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.58	73.8	0.84	At2g17960	816306	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.58	73.8	0.85	At2g18115	3767908	-	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.58	73.8	0.87	At1g61270	842421	lysine and histidine specific transporter, putative	F:amino acid transmembrane transporter activity;P:amino acid transport;C:membrane;MPOFBAV	O.I.	H.G.	S.X.
0.58	73.8	0.86	At2g20616	816587	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P	O.I.	H.G.	S.X.
0.57	73.8	0.88	At5g40130	3771383	-	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.57	73.8	0.85	At5g38400	833827	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OP	O.I.	H.G.	S.X.

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
62.0 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.9 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.0 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.0 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.6 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.8 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.7 99.8 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.0 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.0 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.7 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
48.3 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.2 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.0 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
44.5 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.9 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
42.6 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.1 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.8 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.2 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.0 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
37.8 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.2 99.7 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
33.8 99.7 GSM131707 ATGE_84_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
32.4 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.5 99.7 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
30.6 99.7 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.3 99.7 GSM131708 ATGE_84_D GSE5634 AtGenExpress: Developmental series (siliques and seeds)
27.7 99.7 GSM131706 ATGE_84_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
24.9 99.6 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
21.3 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.9 99.6 GSM131703 ATGE_83_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
18.9 99.5 GSM131705 ATGE_83_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
18.4 99.5 GSM131704 ATGE_83_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
15.8 99.5 GSM131701 ATGE_82_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
14.9 99.4 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
14.7 99.4 GSM131702 ATGE_82_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
14.5 99.4 GSM131700 ATGE_82_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
12.3 99.3 GSM10454 WT Post-Mature Green Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
11.5 99.3 GSM10456 WT Post-Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
9.3 99.1 GSM133117 RIKEN-YAMAUCHI1A GSE5687 AtGenExpress: Different temperature treatment of seeds
8.7 99.0 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.6 99.0 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
62.0	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.9	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.0	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
58.0	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.6	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.8	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.7	99.8	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
50.0	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.0	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.7	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
48.3	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.2	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.0	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
44.5	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.9	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
42.6	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.1	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.8	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.2	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.0	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
37.8	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.2	99.7	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
33.8	99.7	GSM131707	ATGE_84_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
32.4	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.5	99.7	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
30.6	99.7	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
28.3	99.7	GSM131708	ATGE_84_D	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
27.7	99.7	GSM131706	ATGE_84_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
24.9	99.6	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
21.3	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
19.9	99.6	GSM131703	ATGE_83_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
18.9	99.5	GSM131705	ATGE_83_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
18.4	99.5	GSM131704	ATGE_83_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
15.8	99.5	GSM131701	ATGE_82_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
14.9	99.4	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
14.7	99.4	GSM131702	ATGE_82_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
14.5	99.4	GSM131700	ATGE_82_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
12.3	99.3	GSM10454	WT Post-Mature Green Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
11.5	99.3	GSM10456	WT Post-Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
9.3	99.1	GSM133117	RIKEN-YAMAUCHI1A	GSE5687	AtGenExpress: Different temperature treatment of seeds
8.7	99.0	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.6	99.0	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.087 1 GO:0048314 The process by which the anatomical structures of the embryo sac are generated and organized. Morphogenesis pertains to the creation of form. The embryo sac develops from the megaspore in heterosporous plants.
0.087 1 GO:0048446 The process by which the anatomical structures of the petal are generated and organized. Morphogenesis pertains to the creation of form.
0.087 1 GO:0048482 The process by which the anatomical structures of the ovule are generated and organized. Morphogenesis pertains to the creation of form. The ovule is the structure in seed plants enclosing the female gametophyte, and is composed of the nucellus, one or two integuments, and the funiculus; it develops into the seed.

SF	Genes	GO ID	Process Name
0.087	1	GO:0048314	The process by which the anatomical structures of the embryo sac are generated and organized. Morphogenesis pertains to the creation of form. The embryo sac develops from the megaspore in heterosporous plants.
0.087	1	GO:0048446	The process by which the anatomical structures of the petal are generated and organized. Morphogenesis pertains to the creation of form.
0.087	1	GO:0048482	The process by which the anatomical structures of the ovule are generated and organized. Morphogenesis pertains to the creation of form. The ovule is the structure in seed plants enclosing the female gametophyte, and is composed of the nucellus, one or two integuments, and the funiculus; it develops into the seed.

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

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Back to the KAGIANA project homepage

Gene ID	At1g57906
Gene name	-
Module size	21 genes
NF	0.72
%ile	90.3

Co-expression analysis

Gene ID At1g57906 Gene name - Module size 21 genes NF 0.72 %ile 90.3

Co-expression network

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

Co-expressed genes

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 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 At1g57906

Gene name -

Module size 21 genes

NF 0.72

%ile 90.3

: 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

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