CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.8576.1.A1_at

Gene name caffeic acid 3-O-methyltransferase
Homology with Arabidopsis Similar to At5g54160: ATOMT1 (O-METHYLTRANSFERASE 1) (HF=4e-2)

Module size 6 genes

NF 0.51

%ile 66.1

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
0.77 92.1 0.98 Zm.8576.1.A1_at BM074724 caffeic acid 3-O-methyltransferase - 4e-2 At5g54160 ATOMT1 (O-METHYLTRANSFERASE 1) O.I. H.G. S.X.
0.67 85.8 0.98 Zm.10123.1.S1_at BM380717 heat- and acid-stable phosphoprotein - 3e-14 At5g46020 unknown protein O.I. H.G. S.X.
0.61 79.5 0.98 Zm.522.1.S1_at AF200531.1 cellulose synthase7 - 1e-38 At2g21770 CESA9 (CELLULOSE SYNTHASE A9) O.I. H.G. S.X.
0.38 44.2 0.98 Zm.9194.1.A1_at BM267243 - - 1e+0 At3g03456 unknown protein O.I. H.G. S.X.
0.33 36.0 0.98 Zm.4401.1.A1_at AY108702.1 YGL010w-like protein - 9e+0 At5g59360 unknown protein O.I. H.G. S.X.
0.30 29.8 0.98 Zm.2602.1.S1_at AY109922.1 hypothetical protein LOC100217277 - 1e-2 At5g24340 3'-5' exonuclease domain-containing 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.
0.77	92.1	0.98	Zm.8576.1.A1_at	BM074724	caffeic acid 3-O-methyltransferase	-	4e-2	At5g54160	ATOMT1 (O-METHYLTRANSFERASE 1)	O.I.	H.G.	S.X.
0.67	85.8	0.98	Zm.10123.1.S1_at	BM380717	heat- and acid-stable phosphoprotein	-	3e-14	At5g46020	unknown protein	O.I.	H.G.	S.X.
0.61	79.5	0.98	Zm.522.1.S1_at	AF200531.1	cellulose synthase7	-	1e-38	At2g21770	CESA9 (CELLULOSE SYNTHASE A9)	O.I.	H.G.	S.X.
0.38	44.2	0.98	Zm.9194.1.A1_at	BM267243	-	-	1e+0	At3g03456	unknown protein	O.I.	H.G.	S.X.
0.33	36.0	0.98	Zm.4401.1.A1_at	AY108702.1	YGL010w-like protein	-	9e+0	At5g59360	unknown protein	O.I.	H.G.	S.X.
0.30	29.8	0.98	Zm.2602.1.S1_at	AY109922.1	hypothetical protein LOC100217277	-	1e-2	At5g24340	3'-5' exonuclease domain-containing 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
22.3 99.5 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
21.4 99.4 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
17.1 99.1 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
10.6 98.4 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
10.1 98.4 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
8.7 98.1 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
7.7 97.9 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
7.5 97.8 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
7.4 97.8 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 GSM320464 protocol: Methylation filtration (MF) - genotype: CML69 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
22.3	99.5	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
21.4	99.4	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
17.1	99.1	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
10.6	98.4	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
10.1	98.4	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
8.7	98.1	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
7.7	97.9	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
7.5	97.8	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
7.4	97.8	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	GSM320464	protocol: Methylation filtration (MF) - genotype: CML69 maize inbred - rep3	GSE12770	Evaluation of Target Preparation Methods for Single-Feature Polymorphism Detection in Large Complex Plant Genomes

Inter-species module comparison

A co-expression module including the rice gene, Os02g0823400, orthologous to the query gene, Zm.8576.1.A1_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.94 99.4 Os02g0823400 At5g54160 - S-adenosyl-L-methionine: beta-alanineN-methyltransferase (Fragment) 1e-2 At3g53140 O-diphenol-O-methyl transferase, putative O.I. H.G. S.X.
0.61 81.2 Os01g0974500 At5g54160 - - 2e-1 At3g09410 pectinacetylesterase family protein O.I. H.G. S.X.
0.54 71.9 Os06g0186700 At5g54160 - Biopterin transport-related protein BT1 familyprotein 7e-2 At1g79710 integral membrane transporter family protein O.I. H.G. S.X.
0.47 62.3 Os02g0315600 At5g54160 - Basic helix-loop-helix dimerisation region bHLHdomain containing protein 1e+0 At5g63595 FLS4 (FLAVONOL SYNTHASE 4) O.I. H.G. S.X.
0.45 58.8 Os01g0909200 At5g54160 - Type III restriction enzyme, res subunit familyprotein 2e-1 At3g43920 ribonuclease III family protein O.I. H.G. S.X.
0.44 58.1 Os11g0456200 At5g54160 - - 2e+0 At4g36900 RAP2.10 (related to AP2 10) O.I. H.G. S.X.
0.44 58.1 Os06g0181400 At5g54160 - Conserved hypothetical protein 3e+0 At4g30830 unknown protein O.I. H.G. S.X.
0.43 55.4 Os02g0290000 At5g54160 - TPR-like domain containing protein 1e-1 At1g17630 pentatricopeptide (PPR) repeat-containing protein O.I. H.G. S.X.
0.41 52.4 Os08g0322600 At5g54160 - UbiA prenyltransferase family protein 1e-9 At4g23660 AtPPT1 (Arabidopsis thaliana polyprenyltransferase 1) O.I. H.G. S.X.
0.39 48.3 Os12g0610500 At5g54160 - SAM (and some other nucleotide) binding motifdomain containing protein 2e-11 At1g16650 unknown protein O.I. H.G. S.X.
0.38 46.9 Os05g0158700 At5g54160 - Hypothetical protein 4e+0 At4g10457 SCRL1 (SCR-Like 1) O.I. H.G. S.X.
0.38 46.9 Os01g0838900 At5g54160 - Trp repressor/replication initiator domaincontaining protein 7e-4 At4g08520 clathrin adaptor complex small chain family protein O.I. H.G. S.X.
0.38 46.9 Os11g0633500 At5g54160 - NBS-LRR disease resistance protein homologue(Fragment) 2e+0 At2g16070 PDV2 (PLASTID DIVISION2) O.I. H.G. S.X.
0.37 45.0 Os01g0879500 At5g54160 - Nuclear protein SET domain containing protein 5e-2 At1g05420 OFP12 (OVATE FAMILY PROTEIN 12) O.I. H.G. S.X.
0.36 44.0 Os08g0193100 At5g54160 - Geranyl diphosphate synthase 8e-7 At2g34630 geranyl diphosphate synthase, putative / GPPS, putative / dimethylallyltransferase, putative / prenyl transferase, putative O.I. H.G. S.X.
0.36 44.0 Os04g0690400 At5g54160 - Hypothetical protein 3e-2 At1g49010 myb family transcription factor O.I. H.G. S.X.
0.36 44.0 Os03g0608600 At5g54160 - Peptidase, trypsin-like serine and cysteineproteases domain containing protein 8e-1 At1g06330 copper-binding family protein O.I. H.G. S.X.
0.35 41.7 Os01g0978400 At5g54160 - Conserved hypothetical protein 5e+0 At5g56770 unknown protein O.I. H.G. S.X.
0.35 41.7 Os03g0213200 At5g54160 - Hypothetical protein 6e+0 At5g59910 HTB4 O.I. H.G. S.X.
0.33 38.8 Os07g0498900 At5g54160 - Protein of unknown function DUF231 domaincontaining protein 2e-7 At2g14530 unknown protein O.I. H.G. S.X.
0.33 38.8 Os05g0274200 At5g54160 - DNA mismatch repair protein MSH2 (MUS1) 7e-12 At3g18524 MSH2 (MUTS HOMOLOG 2) O.I. H.G. S.X.
0.32 36.3 Os07g0642400 At5g54160 - SNF2-related domain containing protein 2e-5 At5g05130 SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein O.I. H.G. S.X.
0.32 36.3 Os11g0265000 At5g54160 - Uridine kinase family protein 1e-55 At4g26510 ATP binding / kinase/ phosphotransferase, alcohol group as acceptor / uracil phosphoribosyltransferase O.I. H.G. S.X.
0.32 36.3 Os03g0582100 At5g54160 - TPR-like domain containing protein 2e-2 At3g26782 - O.I. H.G. S.X.
0.31 34.5 Os02g0677800 At5g54160 - 40S ribosomal protein S13-2 5e-13 At3g60770 40S ribosomal protein S13 (RPS13A) O.I. H.G. S.X.
0.28 31.1 Os12g0130900 At5g54160 - TPR-like domain containing protein 3e-2 At1g76980 - O.I. H.G. S.X.
0.28 31.1 Os04g0165600 At5g54160 - Peptidase S26A, signal peptidase I family protein 1e-1 At4g39560 kelch repeat-containing F-box family protein O.I. H.G. S.X.
0.27 27.5 Os07g0695900 At5g54160 - Myb, DNA-binding domain containing protein 5e-2 At1g75390 AtbZIP44 (Arabidopsis thaliana basic leucine-zipper 44) O.I. H.G. S.X.
0.27 27.5 Os05g0238400 At5g54160 - Conserved hypothetical protein 4e-2 At2g30560 glycine-rich protein O.I. H.G. S.X.
0.26 25.6 Os07g0249100 At5g54160 - Protein prenyltransferase domain containingprotein 5e-7 At3g06920 pentatricopeptide (PPR) repeat-containing protein O.I. H.G. S.X.
0.25 24.1 Os04g0673400 At5g54160 - Uracil-DNA glycosylase (EC 3.2.2.-) (UDG) 3e-9 At3g18630 uracil DNA glycosylase family protein O.I. H.G. S.X.
0.25 24.1 Os11g0531800 At5g54160 - Hypothetical protein 3e-1 At2g04810 F-box family protein O.I. H.G. S.X.
0.24 22.4 Os06g0125600 At5g54160 - TPR-like domain containing protein 5e-2 At2g37320 pentatricopeptide (PPR) repeat-containing protein O.I. H.G. S.X.
0.18 13.7 Os02g0137600 At5g54160 - Bacterial methyltransferase family protein 2e-7 At5g10910 mraW methylase family protein O.I. H.G. S.X.
0.18 13.7 Os07g0250900 At5g54160 - Harpin-induced 1 domain containing protein 3e-2 At1g36940 unknown protein O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.94	99.4	Os02g0823400	At5g54160	-	S-adenosyl-L-methionine: beta-alanineN-methyltransferase (Fragment)	1e-2	At3g53140	O-diphenol-O-methyl transferase, putative	O.I.	H.G.	S.X.
0.61	81.2	Os01g0974500	At5g54160	-	-	2e-1	At3g09410	pectinacetylesterase family protein	O.I.	H.G.	S.X.
0.54	71.9	Os06g0186700	At5g54160	-	Biopterin transport-related protein BT1 familyprotein	7e-2	At1g79710	integral membrane transporter family protein	O.I.	H.G.	S.X.
0.47	62.3	Os02g0315600	At5g54160	-	Basic helix-loop-helix dimerisation region bHLHdomain containing protein	1e+0	At5g63595	FLS4 (FLAVONOL SYNTHASE 4)	O.I.	H.G.	S.X.
0.45	58.8	Os01g0909200	At5g54160	-	Type III restriction enzyme, res subunit familyprotein	2e-1	At3g43920	ribonuclease III family protein	O.I.	H.G.	S.X.
0.44	58.1	Os11g0456200	At5g54160	-	-	2e+0	At4g36900	RAP2.10 (related to AP2 10)	O.I.	H.G.	S.X.
0.44	58.1	Os06g0181400	At5g54160	-	Conserved hypothetical protein	3e+0	At4g30830	unknown protein	O.I.	H.G.	S.X.
0.43	55.4	Os02g0290000	At5g54160	-	TPR-like domain containing protein	1e-1	At1g17630	pentatricopeptide (PPR) repeat-containing protein	O.I.	H.G.	S.X.
0.41	52.4	Os08g0322600	At5g54160	-	UbiA prenyltransferase family protein	1e-9	At4g23660	AtPPT1 (Arabidopsis thaliana polyprenyltransferase 1)	O.I.	H.G.	S.X.
0.39	48.3	Os12g0610500	At5g54160	-	SAM (and some other nucleotide) binding motifdomain containing protein	2e-11	At1g16650	unknown protein	O.I.	H.G.	S.X.
0.38	46.9	Os05g0158700	At5g54160	-	Hypothetical protein	4e+0	At4g10457	SCRL1 (SCR-Like 1)	O.I.	H.G.	S.X.
0.38	46.9	Os01g0838900	At5g54160	-	Trp repressor/replication initiator domaincontaining protein	7e-4	At4g08520	clathrin adaptor complex small chain family protein	O.I.	H.G.	S.X.
0.38	46.9	Os11g0633500	At5g54160	-	NBS-LRR disease resistance protein homologue(Fragment)	2e+0	At2g16070	PDV2 (PLASTID DIVISION2)	O.I.	H.G.	S.X.
0.37	45.0	Os01g0879500	At5g54160	-	Nuclear protein SET domain containing protein	5e-2	At1g05420	OFP12 (OVATE FAMILY PROTEIN 12)	O.I.	H.G.	S.X.
0.36	44.0	Os08g0193100	At5g54160	-	Geranyl diphosphate synthase	8e-7	At2g34630	geranyl diphosphate synthase, putative / GPPS, putative / dimethylallyltransferase, putative / prenyl transferase, putative	O.I.	H.G.	S.X.
0.36	44.0	Os04g0690400	At5g54160	-	Hypothetical protein	3e-2	At1g49010	myb family transcription factor	O.I.	H.G.	S.X.
0.36	44.0	Os03g0608600	At5g54160	-	Peptidase, trypsin-like serine and cysteineproteases domain containing protein	8e-1	At1g06330	copper-binding family protein	O.I.	H.G.	S.X.
0.35	41.7	Os01g0978400	At5g54160	-	Conserved hypothetical protein	5e+0	At5g56770	unknown protein	O.I.	H.G.	S.X.
0.35	41.7	Os03g0213200	At5g54160	-	Hypothetical protein	6e+0	At5g59910	HTB4	O.I.	H.G.	S.X.
0.33	38.8	Os07g0498900	At5g54160	-	Protein of unknown function DUF231 domaincontaining protein	2e-7	At2g14530	unknown protein	O.I.	H.G.	S.X.
0.33	38.8	Os05g0274200	At5g54160	-	DNA mismatch repair protein MSH2 (MUS1)	7e-12	At3g18524	MSH2 (MUTS HOMOLOG 2)	O.I.	H.G.	S.X.
0.32	36.3	Os07g0642400	At5g54160	-	SNF2-related domain containing protein	2e-5	At5g05130	SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein	O.I.	H.G.	S.X.
0.32	36.3	Os11g0265000	At5g54160	-	Uridine kinase family protein	1e-55	At4g26510	ATP binding / kinase/ phosphotransferase, alcohol group as acceptor / uracil phosphoribosyltransferase	O.I.	H.G.	S.X.
0.32	36.3	Os03g0582100	At5g54160	-	TPR-like domain containing protein	2e-2	At3g26782	-	O.I.	H.G.	S.X.
0.31	34.5	Os02g0677800	At5g54160	-	40S ribosomal protein S13-2	5e-13	At3g60770	40S ribosomal protein S13 (RPS13A)	O.I.	H.G.	S.X.
0.28	31.1	Os12g0130900	At5g54160	-	TPR-like domain containing protein	3e-2	At1g76980	-	O.I.	H.G.	S.X.
0.28	31.1	Os04g0165600	At5g54160	-	Peptidase S26A, signal peptidase I family protein	1e-1	At4g39560	kelch repeat-containing F-box family protein	O.I.	H.G.	S.X.
0.27	27.5	Os07g0695900	At5g54160	-	Myb, DNA-binding domain containing protein	5e-2	At1g75390	AtbZIP44 (Arabidopsis thaliana basic leucine-zipper 44)	O.I.	H.G.	S.X.
0.27	27.5	Os05g0238400	At5g54160	-	Conserved hypothetical protein	4e-2	At2g30560	glycine-rich protein	O.I.	H.G.	S.X.
0.26	25.6	Os07g0249100	At5g54160	-	Protein prenyltransferase domain containingprotein	5e-7	At3g06920	pentatricopeptide (PPR) repeat-containing protein	O.I.	H.G.	S.X.
0.25	24.1	Os04g0673400	At5g54160	-	Uracil-DNA glycosylase (EC 3.2.2.-) (UDG)	3e-9	At3g18630	uracil DNA glycosylase family protein	O.I.	H.G.	S.X.
0.25	24.1	Os11g0531800	At5g54160	-	Hypothetical protein	3e-1	At2g04810	F-box family protein	O.I.	H.G.	S.X.
0.24	22.4	Os06g0125600	At5g54160	-	TPR-like domain containing protein	5e-2	At2g37320	pentatricopeptide (PPR) repeat-containing protein	O.I.	H.G.	S.X.
0.18	13.7	Os02g0137600	At5g54160	-	Bacterial methyltransferase family protein	2e-7	At5g10910	mraW methylase family protein	O.I.	H.G.	S.X.
0.18	13.7	Os07g0250900	At5g54160	-	Harpin-induced 1 domain containing protein	3e-2	At1g36940	unknown protein	O.I.	H.G.	S.X.

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

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Gene ID	Zm.8576.1.A1_at
Gene name	caffeic acid 3-O-methyltransferase
Homology with Arabidopsis	Similar to At5g54160: ATOMT1 (O-METHYLTRANSFERASE 1) (HF=4e-2)
Module size	6 genes
NF	0.51
%ile	66.1

Co-expression analysis

Gene ID Zm.8576.1.A1_at Gene name caffeic acid 3-O-methyltransferase Homology with ArabidopsisSimilar to At5g54160: ATOMT1 (O-METHYLTRANSFERASE 1) (HF=4e-2) Module size 6 genes NF 0.51 %ile 66.1

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_vulgarePopulus_trichocarpaTriticum_aestivumVitis_vinifera

Gene ID Zm.8576.1.A1_at

Gene name caffeic acid 3-O-methyltransferase
Homology with Arabidopsis Similar to At5g54160: ATOMT1 (O-METHYLTRANSFERASE 1) (HF=4e-2)

Module size 6 genes

NF 0.51

%ile 66.1

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