CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.9237.1.A1_at

Gene name
Homology with Arabidopsis Similar to At3g07750: 3' exoribonuclease family domain 1-containing protein (HF=4e-1)

Module size 6 genes

NF 0.56

%ile 74.7

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
0.71 88.2 0.97 Zm.9237.1.A1_at BM350875 - - 4e-1 At3g07750 3' exoribonuclease family domain 1-containing protein O.I. H.G. S.X.
0.63 81.1 0.97 Zm.9238.1.A1_at CO533275 - - 5e-2 At2g23320 WRKY15 O.I. H.G. S.X.
0.55 71.6 0.98 Zm.6562.2.A1_a_at CK347763 plasma membrane associated protein - 6e+0 At5g56990 - O.I. H.G. S.X.
0.44 55.7 0.98 Zm.12789.1.A1_at CA398899 - - 9e-3 At3g04510 LSH2 (LIGHT SENSITIVE HYPOCOTYLS 2) O.I. H.G. S.X.
0.40 48.5 0.98 Zm.14407.2.S1_at AW424519 hypothetical protein LOC100272648 - 3e-140 At1g56070 LOS1 O.I. H.G. S.X.
0.35 38.9 0.98 Zm.5166.1.S1_at AI612220 - - 1e+0 At2g19690 PLA2-BETA (PHOSPHOLIPASE A2-BETA) 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.
0.71	88.2	0.97	Zm.9237.1.A1_at	BM350875	-	-	4e-1	At3g07750	3' exoribonuclease family domain 1-containing protein	O.I.	H.G.	S.X.
0.63	81.1	0.97	Zm.9238.1.A1_at	CO533275	-	-	5e-2	At2g23320	WRKY15	O.I.	H.G.	S.X.
0.55	71.6	0.98	Zm.6562.2.A1_a_at	CK347763	plasma membrane associated protein	-	6e+0	At5g56990	-	O.I.	H.G.	S.X.
0.44	55.7	0.98	Zm.12789.1.A1_at	CA398899	-	-	9e-3	At3g04510	LSH2 (LIGHT SENSITIVE HYPOCOTYLS 2)	O.I.	H.G.	S.X.
0.40	48.5	0.98	Zm.14407.2.S1_at	AW424519	hypothetical protein LOC100272648	-	3e-140	At1g56070	LOS1	O.I.	H.G.	S.X.
0.35	38.9	0.98	Zm.5166.1.S1_at	AI612220	-	-	1e+0	At2g19690	PLA2-BETA (PHOSPHOLIPASE A2-BETA)	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.
0.77	92.1	0.95	Zm.18513.1.S1_at	CO531043	hypothetical protein LOC100192940	-	3e+0	At3g60670	zinc-binding protein, putative	O.I.	H.G.	S.X.
0.67	85.8	0.97	Zm.19213.1.S1_at	CO518628	hypothetical protein LOC100192615	-	1e-2	At3g49430	SRp34a (Ser/Arg-rich protein 34a)	O.I.	H.G.	S.X.
0.56	74.4	0.97	Zm.14103.2.A1_at	CF005933	-	-	8e-5	At3g43740	leucine-rich repeat family protein	O.I.	H.G.	S.X.
0.50	65.7	0.96	Zm.13448.1.A1_at	AY109256.1	-	-	1e+0	At4g14815	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.50	65.7	0.97	Zm.222.1.S1_at	AB024291.1	cytokinin response regulator2	-	4e-1	At1g10470	ARR4 (RESPONSE REGULATOR 4)	O.I.	H.G.	S.X.
0.50	65.7	0.97	Zm.4796.1.A1_a_at	CF632458	hypothetical protein LOC100279432 /// protein mago nashi	-	1e-16	At1g02140	MAGO (MAGO NASHI)	O.I.	H.G.	S.X.
0.50	65.7	0.98	Zm.5167.1.A1_a_at	AY108449.1	caffeoyl-CoA O-methyltransferase 1	-	9e+0	At2g04425	LCR82 (Low-molecular-weight cysteine-rich 82)	O.I.	H.G.	S.X.
0.44	55.7	0.97	Zm.4655.1.S1_a_at	AY110133.1	-	-	5e+0	At5g05330	DNA binding	O.I.	H.G.	S.X.
0.44	55.7	0.97	Zm.14073.1.A1_at	BQ618953	-	-	8e-9	At2g19730	60S ribosomal protein L28 (RPL28A)	O.I.	H.G.	S.X.
0.44	55.7	0.98	Zm.12236.1.A1_at	CA830514	hypothetical protein LOC100194199	-	5e+0	At3g13970	APG12B (AUTOPHAGY 12 B)	O.I.	H.G.	S.X.
0.43	52.8	0.97	ZmAffx.693.1.A1_at	AI737419	hypothetical protein LOC100191981	-	8e-1	At5g24130	unknown protein	O.I.	H.G.	S.X.
0.42	51.3	0.97	Zm.17256.1.A1_at	CK347596	hypothetical protein LOC100192725	-	2e+0	At1g73620	thaumatin-like protein, putative / pathogenesis-related protein, putative	O.I.	H.G.	S.X.
0.40	48.5	0.96	Zm.5309.1.A1_a_at	AI619196	hypothetical protein LOC100192865 /// proteasome subunit beta type 4	-	7e-10	At1g56450	PBG1	O.I.	H.G.	S.X.
0.40	48.5	0.97	Zm.4351.1.S1_at	AY104814.1	Hypothetical protein LOC100191604	-	2e-1	At1g10040	unknown protein	O.I.	H.G.	S.X.
0.40	48.5	0.97	Zm.13397.1.A1_at	CF006845	Hypothetical protein LOC100193697	-	4e-14	At2g35530	bZIP transcription factor family protein	O.I.	H.G.	S.X.
0.40	48.5	0.97	Zm.5453.1.A1_at	CF623623	Hypothetical protein LOC100217027	-	1e-16	At2g27040	AGO4 (ARGONAUTE 4)	O.I.	H.G.	S.X.
0.40	48.5	0.98	Zm.5785.4.A1_at	CA403256	hypothetical protein LOC100279822	-	4e-117	At1g02500	SAM1 (S-ADENOSYLMETHIONINE SYNTHETASE 1)	O.I.	H.G.	S.X.
0.39	45.6	0.97	Zm.1928.1.A1_at	CK368069	hypothetical protein LOC100279329	-	6e+0	At3g46000	ADF2 (ACTIN DEPOLYMERIZING FACTOR 2)	O.I.	H.G.	S.X.
0.38	44.2	0.96	Zm.3983.2.A1_at	AI820263	-	-	8e-1	At3g60510	enoyl-CoA hydratase/isomerase family protein	O.I.	H.G.	S.X.
0.38	44.2	0.97	Zm.4364.1.A1_at	BM349138	hypothetical protein LOC100273301	-	7e+0	At4g14320	60S ribosomal protein L36a/L44 (RPL36aB)	O.I.	H.G.	S.X.
0.36	41.3	0.96	Zm.34.7.S1_at	CD447935	Hypothetical protein LOC100192755	-	7e+0	At4g28210	emb1923 (embryo defective 1923)	O.I.	H.G.	S.X.
0.36	41.3	0.97	Zm.12810.1.A1_at	CA399348	-	-	5e+0	At3g10120	unknown protein	O.I.	H.G.	S.X.
0.33	36.0	0.94	Zm.19324.1.A1_at	CK986141	hypothetical protein LOC100279823	-	6e-3	At3g13065	SRF4 (STRUBBELIG-RECEPTOR FAMILY 4)	O.I.	H.G.	S.X.
0.33	36.0	0.96	Zm.626.1.S1_at	AF355602.1	sulfate transporter ST1	-	9e-5	At1g78000	SULTR1	O.I.	H.G.	S.X.
0.33	36.0	0.97	Zm.14536.1.A1_at	AY187719.1	SET domain protein SDG117	-	5e-1	At1g55260	lipid binding	O.I.	H.G.	S.X.
0.32	33.4	0.96	Zm.17796.1.S1_at	CK371328	-	-	5e-1	At3g23130	SUP (SUPERMAN)	O.I.	H.G.	S.X.
0.31	31.6	0.95	Zm.13387.1.S1_s_at	AF457986.1	hypothetical protein LOC100216899 /// hypothetical protein LOC100274918	-	1e+0	At5g65050	AGL31 (AGAMOUS LIKE MADS-BOX PROTEIN 31)	O.I.	H.G.	S.X.
0.31	31.6	0.97	Zm.14271.1.S1_at	AY107745.1	protein YIP1	-	3e+0	At5g44568	unknown protein	O.I.	H.G.	S.X.
0.31	31.6	0.97	Zm.6438.1.A1_at	BM268459	hypothetical protein LOC100191671	-	1e-30	At1g22170	phosphoglycerate/bisphosphoglycerate mutase family protein	O.I.	H.G.	S.X.
0.30	29.8	0.97	Zm.6200.1.S1_a_at	CF635758	hypothetical protein LOC100191329	-	8e-10	At5g43720	unknown protein	O.I.	H.G.	S.X.
0.30	29.8	0.97	Zm.6045.7.A1_a_at	CK347781	hypothetical protein LOC100216946 /// guanine nucleotide-binding protein beta subunit-like protein	-	3e-8	At1g18080	ATARCA	O.I.	H.G.	S.X.
0.29	28.1	0.97	Zm.3583.2.S1_at	AY105229.1	Hypothetical protein LOC100191673	-	2e+0	At1g14980	CPN10 (CHAPERONIN 10)	O.I.	H.G.	S.X.
0.29	28.1	0.94	Zm.6277.1.A1_at	BM381033	hypothetical protein LOC100192758	-	3e-29	At3g22750	protein kinase, putative	O.I.	H.G.	S.X.
0.29	28.1	0.95	Zm.13826.1.A1_at	AY104500.1	hypothetical protein LOC100273754	-	2e-5	At1g75200	flavodoxin family protein / radical SAM domain-containing protein	O.I.	H.G.	S.X.
0.29	28.1	0.96	Zm.15500.1.S1_at	AY112192.1	-	-	4e+0	At4g29970	F-box family protein	O.I.	H.G.	S.X.
0.29	28.1	0.97	Zm.17280.1.S1_at	CK369569	-	-	7e-2	At1g03900	ATNAP4 (Arabidopsis thaliana non-intrinsic ABC protein 4)	O.I.	H.G.	S.X.
0.29	28.1	0.97	Zm.9111.1.A1_a_at	CB351192	-	-	4e-1	At4g27270	quinone reductase family protein	O.I.	H.G.	S.X.
0.27	24.6	0.97	Zm.9457.1.A1_s_at	BM332847	-	-	6e+0	At5g54850	unknown protein	O.I.	H.G.	S.X.
0.27	24.6	0.93	Zm.19325.1.S1_at	CO528653	hypothetical protein LOC100191211	-	5e-5	At1g45249	ABF2 (ABSCISIC ACID RESPONSIVE ELEMENTS-BINDING FACTOR 2)	O.I.	H.G.	S.X.
0.27	24.6	0.95	Zm.9973.1.A1_at	BM350441	-	-	2e+0	At5g08080	SYP132 (SYNTAXIN OF PLANTS 132)	O.I.	H.G.	S.X.
0.27	24.6	0.96	Zm.2473.1.S1_at	AY104610.1	clathrin binding protein	-	8e-1	At4g18060	clathrin binding	O.I.	H.G.	S.X.
0.26	22.7	0.95	Zm.9839.1.S1_at	AY105069.1	hypothetical protein LOC100193033	-	3e+0	At2g17300	unknown protein	O.I.	H.G.	S.X.
0.26	22.7	0.96	Zm.19244.1.S1_at	CO526426	-	-	2e-1	At4g02690	glutamate binding	O.I.	H.G.	S.X.
0.26	22.7	0.97	Zm.5455.1.A1_at	AI621999	-	-	1e+0	At4g03030	kelch repeat-containing F-box family protein	O.I.	H.G.	S.X.
0.25	21.3	0.95	Zm.19067.1.S1_at	AY107493.1	hypothetical protein LOC100279588	-	3e+0	At5g20810	auxin-responsive protein, putative / small auxin up RNA (SAUR_B)	O.I.	H.G.	S.X.
0.25	21.3	0.97	Zm.2836.1.A1_at	AY112208.1	-	-	5e+0	At2g30280	unknown protein	O.I.	H.G.	S.X.

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
19.5 99.3 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
16.0 99.0 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
15.9 99.0 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
15.8 99.0 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
15.0 98.9 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
13.2 98.8 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
8.2 98.0 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
7.4 97.8 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
7.1 97.7 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
4.7 96.5 GSM320461 protocol: Methylation filtration (MF) - genotype: Mo17 maize inbred - rep3 GSE12770 Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
19.5	99.3	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
16.0	99.0	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
15.9	99.0	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
15.8	99.0	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
15.0	98.9	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
13.2	98.8	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
8.2	98.0	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
7.4	97.8	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
7.1	97.7	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
4.7	96.5	GSM320461	protocol: Methylation filtration (MF) - genotype: Mo17 maize inbred - rep3	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes

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

Back to the CoP portal site

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Gene ID	Zm.9237.1.A1_at
Gene name
Homology with Arabidopsis	Similar to At3g07750: 3' exoribonuclease family domain 1-containing protein (HF=4e-1)
Module size	6 genes
NF	0.56
%ile	74.7

Co-expression analysis

Gene ID Zm.9237.1.A1_at Gene name Homology with ArabidopsisSimilar to At3g07750: 3' exoribonuclease family domain 1-containing protein (HF=4e-1) Module size 6 genes NF 0.56 %ile 74.7

Co-expressed 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

Gene ID Zm.9237.1.A1_at

Gene name
Homology with Arabidopsis Similar to At3g07750: 3' exoribonuclease family domain 1-containing protein (HF=4e-1)

Module size 6 genes

NF 0.56

%ile 74.7

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