CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID GmaAffx.69683.1.S1_at

Gene name
Homology with Arabidopsis Similar to At5g17790: VAR3 (VARIEGATED 3) (HF=7e-9)

Module size 26 genes

NF 0.56

%ile 86.5

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. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.85 92.8 0.94 GmaAffx.69683.1.S1_at CA799656 - - 7e-9 At5g17790 VAR3 (VARIEGATED 3) O.I. H.G. S.X.
0.87 93.2 0.96 Gma.7906.1.S1_at BF716040 - - 7e-9 At1g63610 unknown protein O.I. H.G. S.X.
0.76 89.7 0.96 Gma.13877.1.A1_at BI967630 - - 2e-27 At1g31190 IMPL1 (MYO-INOSITOL MONOPHOSPHATASE LIKE 1) O.I. H.G. S.X.
0.73 88.9 0.97 GmaAffx.81837.1.S1_at CD410469 - - 5e-81 At4g17040 ATP-dependent Clp protease proteolytic subunit, putative O.I. H.G. S.X.
0.67 86.1 0.95 Gma.10852.3.S1_at CD408303 - - 7e-10 At4g25370 Clp amino terminal domain-containing protein O.I. H.G. S.X.
0.67 86.1 0.96 Gma.16456.1.A1_at BE823704 - - 2e-4 At3g28970 AAR3 (antiauxin-resistant 3) O.I. H.G. S.X.
0.64 83.4 0.97 Gma.6940.1.A1_at CA784222 - - 5e+0 At2g39320 OTU-like cysteine protease family protein O.I. H.G. S.X.
0.63 82.9 0.96 Gma.7497.1.S1_at CD393659 OAS-TL4 cysteine synthase (OAS-TL4) - 7e-60 At2g43750 OASB (O-ACETYLSERINE (THIOL) LYASE B) O.I. H.G. S.X.
0.61 81.8 0.96 Gma.5276.1.S1_at BM731770 - - 8e-36 At4g13430 IIL1 (ISOPROPYL MALATE ISOMERASE LARGE SUBUNIT 1) O.I. H.G. S.X.
0.60 80.7 0.95 Gma.7276.1.S1_at CD394605 - - 2e-31 At1g45230 defective chloroplasts and leaves protein-related / DCL protein-related O.I. H.G. S.X.
0.60 80.7 0.95 Gma.301.1.S1_at AW310317 - - 1e-32 At3g13490 OVA5 (OVULE ABORTION 5) O.I. H.G. S.X.
0.59 79.5 0.96 Gma.4917.1.S1_at BI969807 - - 6e-20 At1g04940 TIC20 (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 20) O.I. H.G. S.X.
0.56 78.2 0.96 Gma.1487.1.A1_at CD397045 - - 7e-16 At2g34460 flavin reductase-related O.I. H.G. S.X.
0.54 74.8 0.96 Gma.13063.1.A1_at CD403000 - - 9e-8 At4g08280 - O.I. H.G. S.X.
0.54 74.8 0.96 Gma.2654.1.S1_at BI425273 - - 5e-63 At2g43945 unknown protein O.I. H.G. S.X.
0.53 74.2 0.96 Gma.10069.1.S1_at BE658324 - - 1e-18 At4g39960 DNAJ heat shock family protein O.I. H.G. S.X.
0.51 72.3 0.96 Gma.13200.1.S1_at CD400543 - - 2e-12 At3g20230 50S ribosomal protein L18 family O.I. H.G. S.X.
0.50 71.7 0.95 Gma.9121.1.S1_at CD403401 - - 2e-34 At1g12410 CLP2 (CLP PROTEASE PROTEOLYTIC SUBUNIT 2) O.I. H.G. S.X.
0.46 65.5 0.96 Gma.740.1.S1_at BE659050 - - 5e+0 At5g17350 unknown protein O.I. H.G. S.X.
0.42 59.3 0.96 Gma.13391.1.A1_at CD411330 - - 2e-6 At2g38270 CXIP2 (CAX-INTERACTING PROTEIN 2) O.I. H.G. S.X.
0.42 59.3 0.96 Gma.1563.1.S1_at CD401794 - - 4e-11 At5g16650 DNAJ heat shock N-terminal domain-containing protein O.I. H.G. S.X.
0.41 58.1 0.96 GmaAffx.32100.1.S1_at BI471267 - - 1e+0 At2g28110 FRA8 (FRAGILE FIBER 8) O.I. H.G. S.X.
0.41 58.1 0.96 Gma.5266.1.S1_at CD405683 - - 4e-17 At5g24690 - O.I. H.G. S.X.
0.40 57.1 0.97 Gma.7497.1.S1_a_at CD393659 OAS-TL4 cysteine synthase - 7e-60 At2g43750 OASB (O-ACETYLSERINE (THIOL) LYASE B) O.I. H.G. S.X.
0.39 54.5 0.95 Gma.13530.1.S1_at BU543994 - - 1e-4 At1g49510 emb1273 (embryo defective 1273) O.I. H.G. S.X.
0.27 35.7 0.96 Gma.7425.1.S1_at CA938770 - - 5e-54 At3g19720 ARC5 (ACCUMULATION AND REPLICATION OF CHLOROPLAST 5) O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.85	92.8	0.94	GmaAffx.69683.1.S1_at	CA799656	-	-	7e-9	At5g17790	VAR3 (VARIEGATED 3)	O.I.	H.G.	S.X.
0.87	93.2	0.96	Gma.7906.1.S1_at	BF716040	-	-	7e-9	At1g63610	unknown protein	O.I.	H.G.	S.X.
0.76	89.7	0.96	Gma.13877.1.A1_at	BI967630	-	-	2e-27	At1g31190	IMPL1 (MYO-INOSITOL MONOPHOSPHATASE LIKE 1)	O.I.	H.G.	S.X.
0.73	88.9	0.97	GmaAffx.81837.1.S1_at	CD410469	-	-	5e-81	At4g17040	ATP-dependent Clp protease proteolytic subunit, putative	O.I.	H.G.	S.X.
0.67	86.1	0.95	Gma.10852.3.S1_at	CD408303	-	-	7e-10	At4g25370	Clp amino terminal domain-containing protein	O.I.	H.G.	S.X.
0.67	86.1	0.96	Gma.16456.1.A1_at	BE823704	-	-	2e-4	At3g28970	AAR3 (antiauxin-resistant 3)	O.I.	H.G.	S.X.
0.64	83.4	0.97	Gma.6940.1.A1_at	CA784222	-	-	5e+0	At2g39320	OTU-like cysteine protease family protein	O.I.	H.G.	S.X.
0.63	82.9	0.96	Gma.7497.1.S1_at	CD393659	OAS-TL4 cysteine synthase (OAS-TL4)	-	7e-60	At2g43750	OASB (O-ACETYLSERINE (THIOL) LYASE B)	O.I.	H.G.	S.X.
0.61	81.8	0.96	Gma.5276.1.S1_at	BM731770	-	-	8e-36	At4g13430	IIL1 (ISOPROPYL MALATE ISOMERASE LARGE SUBUNIT 1)	O.I.	H.G.	S.X.
0.60	80.7	0.95	Gma.7276.1.S1_at	CD394605	-	-	2e-31	At1g45230	defective chloroplasts and leaves protein-related / DCL protein-related	O.I.	H.G.	S.X.
0.60	80.7	0.95	Gma.301.1.S1_at	AW310317	-	-	1e-32	At3g13490	OVA5 (OVULE ABORTION 5)	O.I.	H.G.	S.X.
0.59	79.5	0.96	Gma.4917.1.S1_at	BI969807	-	-	6e-20	At1g04940	TIC20 (TRANSLOCON AT THE INNER ENVELOPE MEMBRANE OF CHLOROPLASTS 20)	O.I.	H.G.	S.X.
0.56	78.2	0.96	Gma.1487.1.A1_at	CD397045	-	-	7e-16	At2g34460	flavin reductase-related	O.I.	H.G.	S.X.
0.54	74.8	0.96	Gma.13063.1.A1_at	CD403000	-	-	9e-8	At4g08280	-	O.I.	H.G.	S.X.
0.54	74.8	0.96	Gma.2654.1.S1_at	BI425273	-	-	5e-63	At2g43945	unknown protein	O.I.	H.G.	S.X.
0.53	74.2	0.96	Gma.10069.1.S1_at	BE658324	-	-	1e-18	At4g39960	DNAJ heat shock family protein	O.I.	H.G.	S.X.
0.51	72.3	0.96	Gma.13200.1.S1_at	CD400543	-	-	2e-12	At3g20230	50S ribosomal protein L18 family	O.I.	H.G.	S.X.
0.50	71.7	0.95	Gma.9121.1.S1_at	CD403401	-	-	2e-34	At1g12410	CLP2 (CLP PROTEASE PROTEOLYTIC SUBUNIT 2)	O.I.	H.G.	S.X.
0.46	65.5	0.96	Gma.740.1.S1_at	BE659050	-	-	5e+0	At5g17350	unknown protein	O.I.	H.G.	S.X.
0.42	59.3	0.96	Gma.13391.1.A1_at	CD411330	-	-	2e-6	At2g38270	CXIP2 (CAX-INTERACTING PROTEIN 2)	O.I.	H.G.	S.X.
0.42	59.3	0.96	Gma.1563.1.S1_at	CD401794	-	-	4e-11	At5g16650	DNAJ heat shock N-terminal domain-containing protein	O.I.	H.G.	S.X.
0.41	58.1	0.96	GmaAffx.32100.1.S1_at	BI471267	-	-	1e+0	At2g28110	FRA8 (FRAGILE FIBER 8)	O.I.	H.G.	S.X.
0.41	58.1	0.96	Gma.5266.1.S1_at	CD405683	-	-	4e-17	At5g24690	-	O.I.	H.G.	S.X.
0.40	57.1	0.97	Gma.7497.1.S1_a_at	CD393659	OAS-TL4 cysteine synthase	-	7e-60	At2g43750	OASB (O-ACETYLSERINE (THIOL) LYASE B)	O.I.	H.G.	S.X.
0.39	54.5	0.95	Gma.13530.1.S1_at	BU543994	-	-	1e-4	At1g49510	emb1273 (embryo defective 1273)	O.I.	H.G.	S.X.
0.27	35.7	0.96	Gma.7425.1.S1_at	CA938770	-	-	5e-54	At3g19720	ARC5 (ACCUMULATION AND REPLICATION OF CHLOROPLAST 5)	O.I.	H.G.	S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
8.8 99.1 GSM245938 Leaf_LCO treated_Rep 3_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
8.5 99.1 GSM209581 susceptible_48hours_rep1 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.7 99.0 GSM238034 Soybean-2601R-6-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
7.7 99.0 GSM245935 Leaf_Water Control_Rep 3_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
7.6 98.9 GSM209589 resistant_48hours_rep2 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.3 98.9 GSM238048 Soybean-Mandarin-3-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
7.2 98.9 GSM209580 resistant_48hours_rep1 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.1 98.8 GSM245937 Leaf_LCO treated_Rep 2_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
7.0 98.8 GSM238030 Soybean-2601R-2-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.9 98.8 GSM209590 susceptible_48hours_rep2 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.8 98.7 GSM238061 Soybean-S03W4-5-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.8 98.7 GSM238050 Soybean-Mandarin-6-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.8 98.7 GSM209599 susceptible_48hours_rep3 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.6 98.7 GSM238043 Soybean-Bayfield-5-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.5 98.7 GSM238047 Soybean-Mandarin-1-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.5 98.7 GSM238051 Soybean-Mandarin-7-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.3 98.6 GSM245934 Leaf_Water Control_Rep 2_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.3 98.6 GSM238032 Soybean-2601R-4-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.3 98.6 GSM209598 resistant_48hours_rep3 GSE8432 Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.2 98.6 GSM245936 Leaf_LCO treated_Rep 1_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.2 98.6 GSM238049 Soybean-Mandarin-4-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.1 98.5 GSM245933 Leaf_Water Control_Rep 1_48 h After Treatment GSE9730 Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.1 98.5 GSM238056 Soybean-PS46R-5-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.0 98.5 GSM238060 Soybean-S03W4-4-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.0 98.5 GSM238036 Soybean-Bayfield-1-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9 98.5 GSM238054 Soybean-PS46R-3-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9 98.5 GSM238059 Soybean-S03W4-3-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9 98.5 GSM238031 Soybean-2601R-3-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.8 98.4 GSM238041 Soybean-Bayfield-4-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.8 98.4 GSM238053 Soybean-PS46R-2-RMA GSE9374 Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
8.8	99.1	GSM245938	Leaf_LCO treated_Rep 3_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
8.5	99.1	GSM209581	susceptible_48hours_rep1	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.7	99.0	GSM238034	Soybean-2601R-6-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
7.7	99.0	GSM245935	Leaf_Water Control_Rep 3_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
7.6	98.9	GSM209589	resistant_48hours_rep2	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.3	98.9	GSM238048	Soybean-Mandarin-3-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
7.2	98.9	GSM209580	resistant_48hours_rep1	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
7.1	98.8	GSM245937	Leaf_LCO treated_Rep 2_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
7.0	98.8	GSM238030	Soybean-2601R-2-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.9	98.8	GSM209590	susceptible_48hours_rep2	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.8	98.7	GSM238061	Soybean-S03W4-5-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.8	98.7	GSM238050	Soybean-Mandarin-6-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.8	98.7	GSM209599	susceptible_48hours_rep3	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.6	98.7	GSM238043	Soybean-Bayfield-5-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.5	98.7	GSM238047	Soybean-Mandarin-1-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.5	98.7	GSM238051	Soybean-Mandarin-7-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.3	98.6	GSM245934	Leaf_Water Control_Rep 2_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.3	98.6	GSM238032	Soybean-2601R-4-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.3	98.6	GSM209598	resistant_48hours_rep3	GSE8432	Expression survey of Rpp1 soybean line PI200492 resistant to P. pachyrhizi
6.2	98.6	GSM245936	Leaf_LCO treated_Rep 1_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.2	98.6	GSM238049	Soybean-Mandarin-4-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.1	98.5	GSM245933	Leaf_Water Control_Rep 1_48 h After Treatment	GSE9730	Effect of foliar spray of lipo-chitooligosaccharide (Nod factor) on soybean leaf gene expression.
6.1	98.5	GSM238056	Soybean-PS46R-5-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.0	98.5	GSM238060	Soybean-S03W4-4-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
6.0	98.5	GSM238036	Soybean-Bayfield-1-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9	98.5	GSM238054	Soybean-PS46R-3-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9	98.5	GSM238059	Soybean-S03W4-3-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.9	98.5	GSM238031	Soybean-2601R-3-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.8	98.4	GSM238041	Soybean-Bayfield-4-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans
5.8	98.4	GSM238053	Soybean-PS46R-2-RMA	GSE9374	Exploration of microarrays as tools to assess substantial equivalence of genetically modified soybeans

Inter-species module comparison

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

Back to the CoP portal site

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Gene ID	GmaAffx.69683.1.S1_at
Gene name
Homology with Arabidopsis	Similar to At5g17790: VAR3 (VARIEGATED 3) (HF=7e-9)
Module size	26 genes
NF	0.56
%ile	86.5

Co-expression analysis

Gene ID GmaAffx.69683.1.S1_at Gene name Homology with ArabidopsisSimilar to At5g17790: VAR3 (VARIEGATED 3) (HF=7e-9) Module size 26 genes NF 0.56 %ile 86.5

Co-expressed genes

Click More genes

Specific experiments for the module

Inter-species module comparison

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

Gene ID GmaAffx.69683.1.S1_at

Gene name
Homology with Arabidopsis Similar to At5g17790: VAR3 (VARIEGATED 3) (HF=7e-9)

Module size 26 genes

NF 0.56

%ile 86.5

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