CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.98.1.S1_at

Gene name 3-phosphoshikimate 1-carboxyvinyltransferase
Homology with Arabidopsis Similar to At1g48860: 3-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putative (HF=2e-48)

Module size 40 genes

NF 0.32

%ile 31.3

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
0.97 99.9 0.98 Zm.98.1.S1_at AY106729.1 3-phosphoshikimate 1-carboxyvinyltransferase - 2e-48 At1g48860 3-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putative O.I. H.G. S.X.
0.62 79.8 0.99 ZmAffx.20.1.S1_at AI600385 - - 3e+0 At4g02550 unknown protein O.I. H.G. S.X.
0.52 67.3 0.99 Zm.1128.1.S1_at BM736430 - - 3e+0 At1g27130 ATGSTU13 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 13) O.I. H.G. S.X.
0.51 66.4 0.99 Zm.3180.1.A1_at AW179477 - - 7e-1 At1g32700 zinc-binding family protein O.I. H.G. S.X.
0.51 66.4 0.99 ZmAffx.1194.1.A1_at BE025369 - - 4e+0 At5g59990 - O.I. H.G. S.X.
0.49 61.9 0.98 Zm.18815.1.A1_at CO527279 hypothetical protein LOC100191886 - 2e+0 At4g12530 protease inhibitor/seed storage/lipid transfer protein (LTP) family protein O.I. H.G. S.X.
0.46 58.4 0.99 Zm.6284.1.S1_at AI691250 hypothetical protein LOC100194329 - 1e+0 At5g22035 - O.I. H.G. S.X.
0.46 58.4 0.99 ZmAffx.228.1.A1_at AI670240 - - 5e-2 At5g59000 zinc finger (C3HC4-type RING finger) family protein O.I. H.G. S.X.
0.46 58.4 0.99 Zm.15550.2.A1_at CA404478 protein phosphatase 2C - 7e-13 At5g02760 protein phosphatase 2C family protein / PP2C family protein O.I. H.G. S.X.
0.44 55.7 0.98 ZmAffx.742.1.S1_at AI740139 - - 3e+0 At1g10650 protein binding / zinc ion binding O.I. H.G. S.X.
0.44 55.7 0.99 Zm.12306.1.S1_at CO517988 hypothetical protein LOC100216558 - 5e-2 At5g19680 leucine-rich repeat family protein O.I. H.G. S.X.
0.43 52.8 0.99 ZmAffx.1083.1.A1_at AI974922 - - 1e+0 At1g59830 PP2A-1 O.I. H.G. S.X.
0.43 52.8 0.99 Zm.6592.1.A1_at AI467742 kelch motif family protein - 2e-2 At1g51540 - O.I. H.G. S.X.
0.41 49.7 0.99 ZmAffx.607.1.A1_at AI715035 - - 3e+0 At1g78150 unknown protein O.I. H.G. S.X.
0.38 44.2 0.99 Zm.2368.1.S1_at AY109497.1 plastidic phosphate translocator-like protein1 - 4e-21 At4g32390 phosphate translocator-related O.I. H.G. S.X.
0.38 44.2 0.98 Zm.18127.1.S1_at CN845217 membrin 11 - 1e-8 At5g50440 MEMB12 (MEMBRIN 12) O.I. H.G. S.X.
0.38 44.2 0.98 Zm.7327.1.A1_at AF289256.1 nuclear matrix protein 1 - 4e-2 At5g17620 - O.I. H.G. S.X.
0.36 41.3 0.99 Zm.12679.1.S1_at BU571579 hypothetical protein LOC100217156 - 7e-1 At5g42510 disease resistance-responsive family protein O.I. H.G. S.X.
0.35 38.9 0.99 Zm.11779.1.A1_at CO527258 hypothetical protein LOC100217298 - 3e+0 At3g47800 aldose 1-epimerase family protein O.I. H.G. S.X.
0.35 38.9 0.99 Zm.6719.1.A1_at AI395930 - - 8e-1 At4g01960 unknown protein O.I. H.G. S.X.
0.34 37.2 0.99 Zm.583.1.S1_at AF305892.1 tangled1 - 3e-1 At1g21350 antioxidant/ oxidoreductase O.I. H.G. S.X.
0.34 37.2 0.99 ZmAffx.1019.1.S1_at AI881532 - - 3e+0 At2g29070 ubiquitin fusion degradation UFD1 family protein O.I. H.G. S.X.
0.33 36.0 0.99 ZmAffx.186.1.A1_at AI668363 hypothetical protein LOC100217123 - 6e-5 At5g19690 STT3A (STAUROSPORIN AND TEMPERATURE SENSITIVE 3-LIKE A) O.I. H.G. S.X.
0.32 33.4 0.99 Zm.6559.1.A1_at CF051688 - - 3e-14 At5g26830 threonyl-tRNA synthetase / threonine--tRNA ligase (THRRS) O.I. H.G. S.X.
0.32 33.4 0.99 Zm.13412.1.S1_x_at CF630246 - - 2e-7 At2g36230 APG10 (ALBINO AND PALE GREEN 10) O.I. H.G. S.X.
0.31 31.6 0.99 Zm.4299.1.S1_at CF046651 hypothetical protein LOC100279924 - 5e-14 At3g21630 CERK1 (CHITIN ELICITOR RECEPTOR KINASE 1) O.I. H.G. S.X.
0.29 28.1 0.99 Zm.15499.1.S1_at AY107766.1 - - 3e-17 At1g10940 SNRK2.4 (SNF1-RELATED PROTEIN KINASE 2.4) O.I. H.G. S.X.
0.29 28.1 0.99 Zm.17513.1.A1_at BM074532 MFP1 attachment factor 1 - 5e+0 At1g22840 CYTC-1 (CYTOCHROME C-1) O.I. H.G. S.X.
0.29 28.1 0.98 Zm.19022.1.S1_at CO526898 hypothetical protein LOC100273481 - 7e-1 At5g06570 hydrolase O.I. H.G. S.X.
0.26 22.7 0.99 Zm.6376.1.A1_at AY106982.1 - - 2e-1 At1g68560 XYL1 (ALPHA-XYLOSIDASE 1) O.I. H.G. S.X.
0.25 21.3 0.98 Zm.878.2.S1_at CF016267 60S ribosomal protein L35 - 4e-19 At5g02610 60S ribosomal protein L35 (RPL35D) O.I. H.G. S.X.
0.25 21.3 0.99 Zm.1693.1.A1_at BM382165 - - 4e-3 At3g55670 - O.I. H.G. S.X.
0.24 19.8 0.99 Zm.14014.1.A1_at CF050089 NADH-ubiquinone oxidoreductase 23 kDa subunit - 2e-62 At1g79010 NADH-ubiquinone oxidoreductase 23 kDa subunit, mitochondrial (TYKY) O.I. H.G. S.X.
0.19 12.8 0.99 Zm.13449.1.A1_at CF043720 hypothetical protein LOC100279539 - 5e+0 At5g07600 oleosin / glycine-rich protein O.I. H.G. S.X.
0.17 10.6 0.99 Zm.10554.1.A1_at CA398680 - - 3e-10 At2g44090 - O.I. H.G. S.X.
0.16 9.4 0.99 Zm.13054.1.A1_at CA403903 hypothetical protein LOC100273794 - 9e-6 At2g43080 AT-P4H-1 (A. THALIANA P4H ISOFORM 1) O.I. H.G. S.X.
0.14 7.7 0.99 Zm.9215.1.A1_at BM336047 - - 2e-1 At1g29860 WRKY71 O.I. H.G. S.X.
0.14 7.7 0.99 ZmAffx.118.1.S1_at AI665643 - - 8e-1 At5g59470 PQ-loop repeat family protein / transmembrane family protein O.I. H.G. S.X.
0.14 7.7 0.99 ZmAffx.509.1.A1_at AI691977 - - 3e+0 At2g17740 DC1 domain-containing protein O.I. H.G. S.X.
0.09 4.0 0.99 ZmAffx.261.1.S1_at AI670366 - - 8e-1 At1g03440 leucine-rich repeat family protein 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.
0.97	99.9	0.98	Zm.98.1.S1_at	AY106729.1	3-phosphoshikimate 1-carboxyvinyltransferase	-	2e-48	At1g48860	3-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putative	O.I.	H.G.	S.X.
0.62	79.8	0.99	ZmAffx.20.1.S1_at	AI600385	-	-	3e+0	At4g02550	unknown protein	O.I.	H.G.	S.X.
0.52	67.3	0.99	Zm.1128.1.S1_at	BM736430	-	-	3e+0	At1g27130	ATGSTU13 (ARABIDOPSIS THALIANA GLUTATHIONE S-TRANSFERASE TAU 13)	O.I.	H.G.	S.X.
0.51	66.4	0.99	Zm.3180.1.A1_at	AW179477	-	-	7e-1	At1g32700	zinc-binding family protein	O.I.	H.G.	S.X.
0.51	66.4	0.99	ZmAffx.1194.1.A1_at	BE025369	-	-	4e+0	At5g59990	-	O.I.	H.G.	S.X.
0.49	61.9	0.98	Zm.18815.1.A1_at	CO527279	hypothetical protein LOC100191886	-	2e+0	At4g12530	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.46	58.4	0.99	Zm.6284.1.S1_at	AI691250	hypothetical protein LOC100194329	-	1e+0	At5g22035	-	O.I.	H.G.	S.X.
0.46	58.4	0.99	ZmAffx.228.1.A1_at	AI670240	-	-	5e-2	At5g59000	zinc finger (C3HC4-type RING finger) family protein	O.I.	H.G.	S.X.
0.46	58.4	0.99	Zm.15550.2.A1_at	CA404478	protein phosphatase 2C	-	7e-13	At5g02760	protein phosphatase 2C family protein / PP2C family protein	O.I.	H.G.	S.X.
0.44	55.7	0.98	ZmAffx.742.1.S1_at	AI740139	-	-	3e+0	At1g10650	protein binding / zinc ion binding	O.I.	H.G.	S.X.
0.44	55.7	0.99	Zm.12306.1.S1_at	CO517988	hypothetical protein LOC100216558	-	5e-2	At5g19680	leucine-rich repeat family protein	O.I.	H.G.	S.X.
0.43	52.8	0.99	ZmAffx.1083.1.A1_at	AI974922	-	-	1e+0	At1g59830	PP2A-1	O.I.	H.G.	S.X.
0.43	52.8	0.99	Zm.6592.1.A1_at	AI467742	kelch motif family protein	-	2e-2	At1g51540	-	O.I.	H.G.	S.X.
0.41	49.7	0.99	ZmAffx.607.1.A1_at	AI715035	-	-	3e+0	At1g78150	unknown protein	O.I.	H.G.	S.X.
0.38	44.2	0.99	Zm.2368.1.S1_at	AY109497.1	plastidic phosphate translocator-like protein1	-	4e-21	At4g32390	phosphate translocator-related	O.I.	H.G.	S.X.
0.38	44.2	0.98	Zm.18127.1.S1_at	CN845217	membrin 11	-	1e-8	At5g50440	MEMB12 (MEMBRIN 12)	O.I.	H.G.	S.X.
0.38	44.2	0.98	Zm.7327.1.A1_at	AF289256.1	nuclear matrix protein 1	-	4e-2	At5g17620	-	O.I.	H.G.	S.X.
0.36	41.3	0.99	Zm.12679.1.S1_at	BU571579	hypothetical protein LOC100217156	-	7e-1	At5g42510	disease resistance-responsive family protein	O.I.	H.G.	S.X.
0.35	38.9	0.99	Zm.11779.1.A1_at	CO527258	hypothetical protein LOC100217298	-	3e+0	At3g47800	aldose 1-epimerase family protein	O.I.	H.G.	S.X.
0.35	38.9	0.99	Zm.6719.1.A1_at	AI395930	-	-	8e-1	At4g01960	unknown protein	O.I.	H.G.	S.X.
0.34	37.2	0.99	Zm.583.1.S1_at	AF305892.1	tangled1	-	3e-1	At1g21350	antioxidant/ oxidoreductase	O.I.	H.G.	S.X.
0.34	37.2	0.99	ZmAffx.1019.1.S1_at	AI881532	-	-	3e+0	At2g29070	ubiquitin fusion degradation UFD1 family protein	O.I.	H.G.	S.X.
0.33	36.0	0.99	ZmAffx.186.1.A1_at	AI668363	hypothetical protein LOC100217123	-	6e-5	At5g19690	STT3A (STAUROSPORIN AND TEMPERATURE SENSITIVE 3-LIKE A)	O.I.	H.G.	S.X.
0.32	33.4	0.99	Zm.6559.1.A1_at	CF051688	-	-	3e-14	At5g26830	threonyl-tRNA synthetase / threonine--tRNA ligase (THRRS)	O.I.	H.G.	S.X.
0.32	33.4	0.99	Zm.13412.1.S1_x_at	CF630246	-	-	2e-7	At2g36230	APG10 (ALBINO AND PALE GREEN 10)	O.I.	H.G.	S.X.
0.31	31.6	0.99	Zm.4299.1.S1_at	CF046651	hypothetical protein LOC100279924	-	5e-14	At3g21630	CERK1 (CHITIN ELICITOR RECEPTOR KINASE 1)	O.I.	H.G.	S.X.
0.29	28.1	0.99	Zm.15499.1.S1_at	AY107766.1	-	-	3e-17	At1g10940	SNRK2.4 (SNF1-RELATED PROTEIN KINASE 2.4)	O.I.	H.G.	S.X.
0.29	28.1	0.99	Zm.17513.1.A1_at	BM074532	MFP1 attachment factor 1	-	5e+0	At1g22840	CYTC-1 (CYTOCHROME C-1)	O.I.	H.G.	S.X.
0.29	28.1	0.98	Zm.19022.1.S1_at	CO526898	hypothetical protein LOC100273481	-	7e-1	At5g06570	hydrolase	O.I.	H.G.	S.X.
0.26	22.7	0.99	Zm.6376.1.A1_at	AY106982.1	-	-	2e-1	At1g68560	XYL1 (ALPHA-XYLOSIDASE 1)	O.I.	H.G.	S.X.
0.25	21.3	0.98	Zm.878.2.S1_at	CF016267	60S ribosomal protein L35	-	4e-19	At5g02610	60S ribosomal protein L35 (RPL35D)	O.I.	H.G.	S.X.
0.25	21.3	0.99	Zm.1693.1.A1_at	BM382165	-	-	4e-3	At3g55670	-	O.I.	H.G.	S.X.
0.24	19.8	0.99	Zm.14014.1.A1_at	CF050089	NADH-ubiquinone oxidoreductase 23 kDa subunit	-	2e-62	At1g79010	NADH-ubiquinone oxidoreductase 23 kDa subunit, mitochondrial (TYKY)	O.I.	H.G.	S.X.
0.19	12.8	0.99	Zm.13449.1.A1_at	CF043720	hypothetical protein LOC100279539	-	5e+0	At5g07600	oleosin / glycine-rich protein	O.I.	H.G.	S.X.
0.17	10.6	0.99	Zm.10554.1.A1_at	CA398680	-	-	3e-10	At2g44090	-	O.I.	H.G.	S.X.
0.16	9.4	0.99	Zm.13054.1.A1_at	CA403903	hypothetical protein LOC100273794	-	9e-6	At2g43080	AT-P4H-1 (A. THALIANA P4H ISOFORM 1)	O.I.	H.G.	S.X.
0.14	7.7	0.99	Zm.9215.1.A1_at	BM336047	-	-	2e-1	At1g29860	WRKY71	O.I.	H.G.	S.X.
0.14	7.7	0.99	ZmAffx.118.1.S1_at	AI665643	-	-	8e-1	At5g59470	PQ-loop repeat family protein / transmembrane family protein	O.I.	H.G.	S.X.
0.14	7.7	0.99	ZmAffx.509.1.A1_at	AI691977	-	-	3e+0	At2g17740	DC1 domain-containing protein	O.I.	H.G.	S.X.
0.09	4.0	0.99	ZmAffx.261.1.S1_at	AI670366	-	-	8e-1	At1g03440	leucine-rich repeat family protein	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
5.8 97.2 GSM320448 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.4 97.0 GSM320453 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.2 96.9 GSM320455 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
4.7 96.5 GSM320449 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
4.4 96.2 GSM320454 protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.7 95.4 GSM320447 protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.6 95.2 GSM320450 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep1 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.5 95.1 GSM320451 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep2 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.7 93.2 GSM320452 protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.6 92.9 GSM206301 Upper pulvinus 5 min polysomal RNA biorep 1 GSE8320 Transcriptional and translational gene regulation in the maize pulvinus

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
5.8	97.2	GSM320448	protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep2	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.4	97.0	GSM320453	protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep1	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
5.2	96.9	GSM320455	protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep3	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
4.7	96.5	GSM320449	protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep3	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
4.4	96.2	GSM320454	protocol: Cot filtration (CF) - genotype: CML69 maize inbred - rep2	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.7	95.4	GSM320447	protocol: Cot filtration (CF) - genotype: B73 maize inbred - rep1	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.6	95.2	GSM320450	protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep1	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
3.5	95.1	GSM320451	protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep2	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.7	93.2	GSM320452	protocol: Cot filtration (CF) - genotype: Mo17 maize inbred - rep3	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes
2.6	92.9	GSM206301	Upper pulvinus 5 min polysomal RNA biorep 1	GSE8320	Transcriptional and translational gene regulation in the maize pulvinus

Inter-species module comparison

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

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Gene ID	Zm.98.1.S1_at
Gene name	3-phosphoshikimate 1-carboxyvinyltransferase
Homology with Arabidopsis	Similar to At1g48860: 3-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putative (HF=2e-48)
Module size	40 genes
NF	0.32
%ile	31.3

Co-expression analysis

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_thalianaGlycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_vinifera

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