CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Zm.12746.1.A1_at

Gene name somatic embryogenesis related protein
Homology with Arabidopsis Similar to At2g18530: protein kinase family protein (HF=1e+0)

Module size 6 genes

NF 0.49

%ile 61.4

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
0.50 65.7 0.98 Zm.12746.1.A1_at BU499218 somatic embryogenesis related protein - 1e+0 At2g18530 protein kinase family protein O.I. H.G. S.X.
0.67 85.8 0.99 Zm.16824.1.S1_at CF602732 SAM domain family protein - 5e-1 At3g07170 sterile alpha motif (SAM) domain-containing protein O.I. H.G. S.X.
0.60 77.8 0.99 ZmAffx.587.1.A1_at AI715015 - - 3e+0 At5g35900 LBD35 (LOB DOMAIN-CONTAINING PROTEIN 35) O.I. H.G. S.X.
0.40 48.5 0.99 Zm.18109.1.S1_at AI881274 - - 3e+0 At4g23340 oxidoreductase, 2OG-Fe(II) oxygenase family protein O.I. H.G. S.X.
0.36 41.3 0.99 ZmAffx.743.1.S1_at AI745735 - - 8e-1 At4g28170 unknown protein O.I. H.G. S.X.
0.32 33.4 0.99 Zm.7309.1.S1_at AF384036.1 nucleosome/chromatin assembly factor A - 2e-3 At1g18800 NRP2 (NAP1-RELATED PROTEIN 2) 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.
0.50	65.7	0.98	Zm.12746.1.A1_at	BU499218	somatic embryogenesis related protein	-	1e+0	At2g18530	protein kinase family protein	O.I.	H.G.	S.X.
0.67	85.8	0.99	Zm.16824.1.S1_at	CF602732	SAM domain family protein	-	5e-1	At3g07170	sterile alpha motif (SAM) domain-containing protein	O.I.	H.G.	S.X.
0.60	77.8	0.99	ZmAffx.587.1.A1_at	AI715015	-	-	3e+0	At5g35900	LBD35 (LOB DOMAIN-CONTAINING PROTEIN 35)	O.I.	H.G.	S.X.
0.40	48.5	0.99	Zm.18109.1.S1_at	AI881274	-	-	3e+0	At4g23340	oxidoreductase, 2OG-Fe(II) oxygenase family protein	O.I.	H.G.	S.X.
0.36	41.3	0.99	ZmAffx.743.1.S1_at	AI745735	-	-	8e-1	At4g28170	unknown protein	O.I.	H.G.	S.X.
0.32	33.4	0.99	Zm.7309.1.S1_at	AF384036.1	nucleosome/chromatin assembly factor A	-	2e-3	At1g18800	NRP2 (NAP1-RELATED PROTEIN 2)	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
9.2 98.2 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
8.4 98.1 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
6.4 97.5 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
4.1 95.9 GSM202298 B73 immature ear tissue, biological replicate 2 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
4.0 95.8 GSM202304 B73 immature ear tissue, biological replicate 3 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.6 95.2 GSM202292 B73 immature ear tissue, biological replicate 1 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.5 95.1 GSM202296 B73xMo17 immature ear tissue, biological replicate 1 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.4 94.9 GSM202302 B73xMo17 immature ear tissue, biological replicate 2 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.4 94.9 GSM202306 Mo17xB73 immature ear tissue, biological replicate 3 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.3 94.7 GSM202299 Mo17xB73 immature ear tissue, biological replicate 2 GSE8176 Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
9.2	98.2	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
8.4	98.1	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
6.4	97.5	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
4.1	95.9	GSM202298	B73 immature ear tissue, biological replicate 2	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
4.0	95.8	GSM202304	B73 immature ear tissue, biological replicate 3	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.6	95.2	GSM202292	B73 immature ear tissue, biological replicate 1	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.5	95.1	GSM202296	B73xMo17 immature ear tissue, biological replicate 1	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.4	94.9	GSM202302	B73xMo17 immature ear tissue, biological replicate 2	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.4	94.9	GSM202306	Mo17xB73 immature ear tissue, biological replicate 3	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data
3.3	94.7	GSM202299	Mo17xB73 immature ear tissue, biological replicate 2	GSE8176	Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data

Inter-species module comparison

A co-expression module including the poplar gene, PtpAffx.215423.1.S1_at, orthologous to the query gene, Zm.12746.1.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
0.97 99.9 PtpAffx.215423.1.S1_at At2g18530 hypothetical protein - 2e+0 At5g40500 unknown protein O.I. H.G. S.X.
0.26 45.2 PtpAffx.222564.1.S1_at At2g18530 hypothetical protein - 1e+0 At5g44650 unknown protein O.I. H.G. S.X.
0.20 34.6 PtpAffx.202170.1.S1_at At2g18530 hypothetical protein - 7e-67 At2g45540 WD-40 repeat family protein / beige-related O.I. H.G. S.X.
0.20 34.6 PtpAffx.207509.1.S1_at At2g18530 hypothetical protein - 1e-3 At2g33480 ANAC041 (Arabidopsis NAC domain containing protein 41) O.I. H.G. S.X.
0.16 26.9 PtpAffx.203921.1.S1_at At2g18530 hypothetical protein - 2e-11 At5g16120 hydrolase, alpha/beta fold family protein O.I. H.G. S.X.
0.15 25.3 Ptp.5924.1.S1_at At2g18530 hypothetical protein - 1e-147 At4g18710 BIN2 (BRASSINOSTEROID-INSENSITIVE 2) O.I. H.G. S.X.
0.14 23.5 PtpAffx.212697.1.S1_at At2g18530 hypothetical protein - 1e-5 At1g18090 exonuclease, putative O.I. H.G. S.X.
0.13 21.6 PtpAffx.212201.1.S1_x_at At2g18530 hypothetical protein - 1e+0 At5g01445 unknown protein O.I. H.G. S.X.
0.13 21.6 PtpAffx.61046.1.S1_at At2g18530 cytochrome P450 /// cytochrome P450 - 2e-1 At3g55630 ATDFD (A. THALIANA DHFS-FPGS HOMOLOG D) O.I. H.G. S.X.
0.13 21.6 PtpAffx.213032.1.S1_x_at At2g18530 hypothetical protein - 1e-30 At5g51600 PLE (PLEIADE) O.I. H.G. S.X.
0.13 21.6 PtpAffx.206616.1.S1_at At2g18530 hypothetical protein - 0 At3g43300 ATMIN7 (ARABIDOPSIS THALIANA HOPM INTERACTOR 7) O.I. H.G. S.X.
0.12 19.6 PtpAffx.45426.1.S1_s_at At2g18530 - - 1e-42 Atmg00030 - O.I. H.G. S.X.
0.10 16.3 Ptp.1530.2.S1_at At2g18530 - - 4e+0 At2g20530 ATPHB6 (PROHIBITIN 6) O.I. H.G. S.X.
0.09 14.6 PtpAffx.37583.1.A1_at At2g18530 hypothetical protein - 1e+0 At3g25780 AOC3 (ALLENE OXIDE CYCLASE 3) O.I. H.G. S.X.
0.09 14.6 PtpAffx.159025.1.A1_s_at At2g18530 hypothetical protein - 5e-112 At2g26140 ftsh4 (FtsH protease 4) O.I. H.G. S.X.
0.08 12.9 PtpAffx.221053.1.S1_at At2g18530 chromatin remodeling complex subunit - 3e-46 At2g44980 transcription regulatory protein SNF2, putative O.I. H.G. S.X.
0.07 11.6 PtpAffx.31607.1.A1_at At2g18530 - - 3e+0 At5g49440 unknown protein O.I. H.G. S.X.
0.07 11.6 Ptp.8018.2.S1_at At2g18530 - - 4e+0 At4g01220 - O.I. H.G. S.X.
0.06 9.8 PtpAffx.203345.1.S1_at At2g18530 hypothetical protein - 1e+0 At5g66180 - O.I. H.G. S.X.
0.06 9.8 PtpAffx.155157.1.S1_at At2g18530 hypothetical protein - 2e-18 At3g01100 HYP1 (HYPOTHETICAL PROTEIN 1) O.I. H.G. S.X.
0.05 8.3 PtpAffx.2025.1.S1_a_at At2g18530 hypothetical protein - 7e-22 At4g33910 oxidoreductase, 2OG-Fe(II) oxygenase family protein O.I. H.G. S.X.
0.05 8.3 PtpAffx.47670.1.S1_at At2g18530 - - 6e-1 At3g55460 SCL30 O.I. H.G. S.X.
0.04 6.9 PtpAffx.29405.1.S1_at At2g18530 hypothetical protein - 4e-1 At5g18540 unknown protein O.I. H.G. S.X.
0.03 5.2 PtpAffx.224935.1.S1_at At2g18530 - - 1e-3 At5g18360 disease resistance protein (TIR-NBS-LRR class), putative O.I. H.G. S.X.
0.03 5.2 PtpAffx.46725.3.A1_at At2g18530 hypothetical protein - 6e-3 At3g53990 universal stress protein (USP) family protein O.I. H.G. S.X.
0.03 5.2 PtpAffx.157804.1.S1_at At2g18530 hypothetical protein - 2e-58 At4g34640 SQS1 (SQUALENE SYNTHASE 1) O.I. H.G. S.X.
0.02 3.6 PtpAffx.207408.1.S1_at At2g18530 hypothetical protein - 3e-3 At3g44710 unknown protein O.I. H.G. S.X.
0.02 3.6 PtpAffx.34924.2.S1_at At2g18530 hypothetical protein - 3e+0 At4g19003 VPS25 O.I. H.G. S.X.
0.01 2.2 PtpAffx.219987.1.S1_at At2g18530 hypothetical protein - 6e-5 At4g16790 hydroxyproline-rich glycoprotein family 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.
0.97	99.9	PtpAffx.215423.1.S1_at	At2g18530	hypothetical protein	-	2e+0	At5g40500	unknown protein	O.I.	H.G.	S.X.
0.26	45.2	PtpAffx.222564.1.S1_at	At2g18530	hypothetical protein	-	1e+0	At5g44650	unknown protein	O.I.	H.G.	S.X.
0.20	34.6	PtpAffx.202170.1.S1_at	At2g18530	hypothetical protein	-	7e-67	At2g45540	WD-40 repeat family protein / beige-related	O.I.	H.G.	S.X.
0.20	34.6	PtpAffx.207509.1.S1_at	At2g18530	hypothetical protein	-	1e-3	At2g33480	ANAC041 (Arabidopsis NAC domain containing protein 41)	O.I.	H.G.	S.X.
0.16	26.9	PtpAffx.203921.1.S1_at	At2g18530	hypothetical protein	-	2e-11	At5g16120	hydrolase, alpha/beta fold family protein	O.I.	H.G.	S.X.
0.15	25.3	Ptp.5924.1.S1_at	At2g18530	hypothetical protein	-	1e-147	At4g18710	BIN2 (BRASSINOSTEROID-INSENSITIVE 2)	O.I.	H.G.	S.X.
0.14	23.5	PtpAffx.212697.1.S1_at	At2g18530	hypothetical protein	-	1e-5	At1g18090	exonuclease, putative	O.I.	H.G.	S.X.
0.13	21.6	PtpAffx.212201.1.S1_x_at	At2g18530	hypothetical protein	-	1e+0	At5g01445	unknown protein	O.I.	H.G.	S.X.
0.13	21.6	PtpAffx.61046.1.S1_at	At2g18530	cytochrome P450 /// cytochrome P450	-	2e-1	At3g55630	ATDFD (A. THALIANA DHFS-FPGS HOMOLOG D)	O.I.	H.G.	S.X.
0.13	21.6	PtpAffx.213032.1.S1_x_at	At2g18530	hypothetical protein	-	1e-30	At5g51600	PLE (PLEIADE)	O.I.	H.G.	S.X.
0.13	21.6	PtpAffx.206616.1.S1_at	At2g18530	hypothetical protein	-	0	At3g43300	ATMIN7 (ARABIDOPSIS THALIANA HOPM INTERACTOR 7)	O.I.	H.G.	S.X.
0.12	19.6	PtpAffx.45426.1.S1_s_at	At2g18530	-	-	1e-42	Atmg00030	-	O.I.	H.G.	S.X.
0.10	16.3	Ptp.1530.2.S1_at	At2g18530	-	-	4e+0	At2g20530	ATPHB6 (PROHIBITIN 6)	O.I.	H.G.	S.X.
0.09	14.6	PtpAffx.37583.1.A1_at	At2g18530	hypothetical protein	-	1e+0	At3g25780	AOC3 (ALLENE OXIDE CYCLASE 3)	O.I.	H.G.	S.X.
0.09	14.6	PtpAffx.159025.1.A1_s_at	At2g18530	hypothetical protein	-	5e-112	At2g26140	ftsh4 (FtsH protease 4)	O.I.	H.G.	S.X.
0.08	12.9	PtpAffx.221053.1.S1_at	At2g18530	chromatin remodeling complex subunit	-	3e-46	At2g44980	transcription regulatory protein SNF2, putative	O.I.	H.G.	S.X.
0.07	11.6	PtpAffx.31607.1.A1_at	At2g18530	-	-	3e+0	At5g49440	unknown protein	O.I.	H.G.	S.X.
0.07	11.6	Ptp.8018.2.S1_at	At2g18530	-	-	4e+0	At4g01220	-	O.I.	H.G.	S.X.
0.06	9.8	PtpAffx.203345.1.S1_at	At2g18530	hypothetical protein	-	1e+0	At5g66180	-	O.I.	H.G.	S.X.
0.06	9.8	PtpAffx.155157.1.S1_at	At2g18530	hypothetical protein	-	2e-18	At3g01100	HYP1 (HYPOTHETICAL PROTEIN 1)	O.I.	H.G.	S.X.
0.05	8.3	PtpAffx.2025.1.S1_a_at	At2g18530	hypothetical protein	-	7e-22	At4g33910	oxidoreductase, 2OG-Fe(II) oxygenase family protein	O.I.	H.G.	S.X.
0.05	8.3	PtpAffx.47670.1.S1_at	At2g18530	-	-	6e-1	At3g55460	SCL30	O.I.	H.G.	S.X.
0.04	6.9	PtpAffx.29405.1.S1_at	At2g18530	hypothetical protein	-	4e-1	At5g18540	unknown protein	O.I.	H.G.	S.X.
0.03	5.2	PtpAffx.224935.1.S1_at	At2g18530	-	-	1e-3	At5g18360	disease resistance protein (TIR-NBS-LRR class), putative	O.I.	H.G.	S.X.
0.03	5.2	PtpAffx.46725.3.A1_at	At2g18530	hypothetical protein	-	6e-3	At3g53990	universal stress protein (USP) family protein	O.I.	H.G.	S.X.
0.03	5.2	PtpAffx.157804.1.S1_at	At2g18530	hypothetical protein	-	2e-58	At4g34640	SQS1 (SQUALENE SYNTHASE 1)	O.I.	H.G.	S.X.
0.02	3.6	PtpAffx.207408.1.S1_at	At2g18530	hypothetical protein	-	3e-3	At3g44710	unknown protein	O.I.	H.G.	S.X.
0.02	3.6	PtpAffx.34924.2.S1_at	At2g18530	hypothetical protein	-	3e+0	At4g19003	VPS25	O.I.	H.G.	S.X.
0.01	2.2	PtpAffx.219987.1.S1_at	At2g18530	hypothetical protein	-	6e-5	At4g16790	hydroxyproline-rich glycoprotein family protein	O.I.	H.G.	S.X.

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

Back to the CoP portal site

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Gene ID	Zm.12746.1.A1_at
Gene name	somatic embryogenesis related protein
Homology with Arabidopsis	Similar to At2g18530: protein kinase family protein (HF=1e+0)
Module size	6 genes
NF	0.49
%ile	61.4

Co-expression analysis

Gene ID Zm.12746.1.A1_at Gene name somatic embryogenesis related protein Homology with ArabidopsisSimilar to At2g18530: protein kinase family protein (HF=1e+0) Module size 6 genes NF 0.49 %ile 61.4

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_sativaTriticum_aestivumVitis_vinifera

Gene ID Zm.12746.1.A1_at

Gene name somatic embryogenesis related protein
Homology with Arabidopsis Similar to At2g18530: protein kinase family protein (HF=1e+0)

Module size 6 genes

NF 0.49

%ile 61.4

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