CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig17040_at

Gene name
Homology with Arabidopsis Similar to At3g60490: AP2 domain-containing transcription factor TINY, putative (HF=2e-2)

Module size 6 genes

NF 0.67

%ile 88.8

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
0.91 98.1 0.96 Contig17040_at Contig17040 - - 2e-2 At3g60490 AP2 domain-containing transcription factor TINY, putative O.I. H.G. S.X.
0.80 92.5 0.96 Contig15086_at Contig15086 - - 6e-4 At5g40570 surfeit locus protein 2 family protein / SURF2 family protein O.I. H.G. S.X.
0.73 88.7 0.95 Contig1924_at Contig1924 - - 3e-1 At4g25020 KOW domain-containing protein / D111/G-patch domain-containing protein O.I. H.G. S.X.
0.73 88.7 0.95 Contig15087_at Contig15087 - - 8e-3 At5g14390 - O.I. H.G. S.X.
0.63 80.3 0.95 Contig15990_at Contig15990 - - 7e+0 At2g14910 unknown protein O.I. H.G. S.X.
0.36 47.1 0.92 HVSMEm0013G04r2_x_at HVSMEm0013G04r2 - - 5e+0 At1g59950 aldo/keto reductase, putative 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.
0.91	98.1	0.96	Contig17040_at	Contig17040	-	-	2e-2	At3g60490	AP2 domain-containing transcription factor TINY, putative	O.I.	H.G.	S.X.
0.80	92.5	0.96	Contig15086_at	Contig15086	-	-	6e-4	At5g40570	surfeit locus protein 2 family protein / SURF2 family protein	O.I.	H.G.	S.X.
0.73	88.7	0.95	Contig1924_at	Contig1924	-	-	3e-1	At4g25020	KOW domain-containing protein / D111/G-patch domain-containing protein	O.I.	H.G.	S.X.
0.73	88.7	0.95	Contig15087_at	Contig15087	-	-	8e-3	At5g14390	-	O.I.	H.G.	S.X.
0.63	80.3	0.95	Contig15990_at	Contig15990	-	-	7e+0	At2g14910	unknown protein	O.I.	H.G.	S.X.
0.36	47.1	0.92	HVSMEm0013G04r2_x_at	HVSMEm0013G04r2	-	-	5e+0	At1g59950	aldo/keto reductase, putative	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
47.9 99.9 GSM238415 Endosperm 8DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
14.0 99.5 GSM238414 Endosperm 8DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
9.5 99.0 GSM282038 Malting_kilned_Morex_rep1 GSE11200 Expression data from malting barley seeds
4.9 97.1 GSM261047 after 3 days in mannitol medium rep3 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
4.9 97.1 GSM261073 Albina f-17 Hardened rep3 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
4.8 97.0 GSM215729 gibberellin plus Yariv-reagent treatment rep1 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
4.2 96.3 GSM261045 after 3 days in mannitol medium rep1 GSE10330 Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
4.0 96.0 GSM215732 gibberellin plus Yariv-reagent treatment rep2 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
4.0 96.0 GSM261070 Albina f-17 Control rep3 GSE10332 Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
3.9 95.8 GSM282031 Malting_day1_Harrington_rep1 GSE11200 Expression data from malting barley seeds

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
47.9	99.9	GSM238415	Endosperm 8DAF; Seed development; Rep 2	GSE9365	Expression data from barley maturing and germinating grains
14.0	99.5	GSM238414	Endosperm 8DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
9.5	99.0	GSM282038	Malting_kilned_Morex_rep1	GSE11200	Expression data from malting barley seeds
4.9	97.1	GSM261047	after 3 days in mannitol medium rep3	GSE10330	Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
4.9	97.1	GSM261073	Albina f-17 Hardened rep3	GSE10332	Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
4.8	97.0	GSM215729	gibberellin plus Yariv-reagent treatment rep1	GSE8712	The effects of Yariv-reagent on barley aleurone GA signaling
4.2	96.3	GSM261045	after 3 days in mannitol medium rep1	GSE10330	Transcriptome analysis of barley anthers: effect of mannitol treatment on microspore embryogenesis
4.0	96.0	GSM215732	gibberellin plus Yariv-reagent treatment rep2	GSE8712	The effects of Yariv-reagent on barley aleurone GA signaling
4.0	96.0	GSM261070	Albina f-17 Control rep3	GSE10332	Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1
3.9	95.8	GSM282031	Malting_day1_Harrington_rep1	GSE11200	Expression data from malting barley seeds

Inter-species module comparison

A co-expression module including the wheat gene, Ta.9883.1.S1_x_at, orthologous to the query gene, Contig17040_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.90 94.8 Ta.9883.1.S1_x_at At3g60490 - - 3e-1 At5g01350 unknown protein O.I. H.G. S.X.
0.78 91.1 Ta.9924.1.S1_at At3g60490 - - 4e+0 At3g23390 60S ribosomal protein L36a/L44 (RPL36aA) O.I. H.G. S.X.
0.78 91.1 Ta.9957.1.S1_at At3g60490 - - 2e+0 At5g64080 protease inhibitor/seed storage/lipid transfer protein (LTP) family protein O.I. H.G. S.X.
0.74 89.4 Ta.14244.1.S1_at At3g60490 - - 1e+0 At1g19010 unknown protein O.I. H.G. S.X.
0.70 87.2 Ta.9938.1.S1_at At3g60490 - - 6e+0 At4g34760 auxin-responsive family protein O.I. H.G. S.X.
0.69 86.9 TaAffx.12788.1.S1_at At3g60490 - - 1e+0 At4g02450 glycine-rich protein O.I. H.G. S.X.
0.68 86.5 Ta.799.1.S1_at At3g60490 - - 2e-4 At4g32400 SHS1 (SODIUM HYPERSENSITIVE 1) O.I. H.G. S.X.
0.68 86.5 Ta.837.1.S1_at At3g60490 - - 1e+0 At3g06435 Expressed protein O.I. H.G. S.X.
0.65 83.9 TaAffx.14473.1.S1_at At3g60490 - - 1e+0 At1g59722 unknown protein O.I. H.G. S.X.
0.65 83.9 TaAffx.3194.1.S1_at At3g60490 - - 2e+0 At3g12345 unknown protein O.I. H.G. S.X.
0.65 83.9 TaAffx.75772.1.A1_at At3g60490 - - 3e-1 At2g36724 unknown protein O.I. H.G. S.X.
0.64 83.6 Ta.13736.1.S1_at At3g60490 - - 2e-2 At4g30460 glycine-rich protein O.I. H.G. S.X.
0.64 83.6 TaAffx.48045.1.S1_at At3g60490 - - 4e-1 At3g12345 unknown protein O.I. H.G. S.X.
0.63 83.1 Ta.10172.3.A1_x_at At3g60490 - - 4e+0 At1g67950 RNA recognition motif (RRM)-containing protein O.I. H.G. S.X.
0.62 82.3 Ta.27896.1.S1_at At3g60490 - - 3e+0 At4g15953 - O.I. H.G. S.X.
0.62 82.3 Ta.799.1.S1_x_at At3g60490 - - 2e-4 At4g32400 SHS1 (SODIUM HYPERSENSITIVE 1) O.I. H.G. S.X.
0.61 82.0 TaAffx.20889.1.S1_at At3g60490 - - 4e+0 At1g02130 ARA-5 (ARABIDOPSIS RAS 5) O.I. H.G. S.X.
0.61 82.0 Ta.10061.1.S1_at At3g60490 - - 8e+0 At2g27970 CKS2 (CDK-subunit 2) O.I. H.G. S.X.
0.61 82.0 TaAffx.69473.1.S1_at At3g60490 - - 8e+0 At5g55750 hydroxyproline-rich glycoprotein family protein O.I. H.G. S.X.
0.60 81.0 Ta.27567.1.S1_at At3g60490 - - 5e+0 At5g06990 unknown protein O.I. H.G. S.X.
0.60 81.0 Ta.10188.1.A1_at At3g60490 - - 6e-1 At2g39170 unknown protein O.I. H.G. S.X.
0.59 79.8 Ta.907.1.S1_at At3g60490 - - 4e+0 At5g43840 AT-HSFA6A O.I. H.G. S.X.
0.58 79.2 TaAffx.261.1.S1_at At3g60490 - - 6e+0 At3g54940 - O.I. H.G. S.X.
0.57 79.2 TaAffx.3389.1.S1_at At3g60490 - - 9e-3 At1g06260 cysteine proteinase, putative O.I. H.G. S.X.
0.57 79.2 Ta.9835.1.S1_at At3g60490 - - 7e+0 At3g09290 TAC1 (TELOMERASE ACTIVATOR1) O.I. H.G. S.X.
0.56 78.6 Ta.9944.1.S1_at At3g60490 - - 1e+1 At5g12236 unknown protein O.I. H.G. S.X.
0.53 74.9 TaAffx.103040.1.S1_at At3g60490 - - 3e-1 At5g48240 unknown protein O.I. H.G. S.X.
0.52 73.7 Ta.10099.2.S1_x_at At3g60490 - - 4e+0 At5g64520 XRCC2 O.I. H.G. S.X.
0.52 73.7 Ta.2002.1.S1_at At3g60490 - - 4e-1 At1g75040 PR5 (PATHOGENESIS-RELATED GENE 5) O.I. H.G. S.X.
0.52 73.7 Ta.27779.1.S1_at At3g60490 - - 1e+0 At5g19870 unknown protein O.I. H.G. S.X.
0.49 69.7 Ta.25687.1.S1_at At3g60490 - - 4e+0 At2g34440 AGL29 (AGAMOUS-LIKE 29) O.I. H.G. S.X.
0.48 69.0 Ta.10046.1.S1_at At3g60490 - - 4e+0 At1g71260 ATWHY2 (A. THALIANA WHIRLY 2) O.I. H.G. S.X.
0.47 67.9 Ta.27571.1.S1_at At3g60490 - - 6e+0 At5g55125 unknown protein O.I. H.G. S.X.
0.45 65.2 TaAffx.48328.1.S1_at At3g60490 - - 6e+0 At5g11640 - O.I. H.G. S.X.
0.30 40.9 TaAffx.107215.2.S1_at At3g60490 - - 2e-1 At1g74458 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.
0.90	94.8	Ta.9883.1.S1_x_at	At3g60490	-	-	3e-1	At5g01350	unknown protein	O.I.	H.G.	S.X.
0.78	91.1	Ta.9924.1.S1_at	At3g60490	-	-	4e+0	At3g23390	60S ribosomal protein L36a/L44 (RPL36aA)	O.I.	H.G.	S.X.
0.78	91.1	Ta.9957.1.S1_at	At3g60490	-	-	2e+0	At5g64080	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.74	89.4	Ta.14244.1.S1_at	At3g60490	-	-	1e+0	At1g19010	unknown protein	O.I.	H.G.	S.X.
0.70	87.2	Ta.9938.1.S1_at	At3g60490	-	-	6e+0	At4g34760	auxin-responsive family protein	O.I.	H.G.	S.X.
0.69	86.9	TaAffx.12788.1.S1_at	At3g60490	-	-	1e+0	At4g02450	glycine-rich protein	O.I.	H.G.	S.X.
0.68	86.5	Ta.799.1.S1_at	At3g60490	-	-	2e-4	At4g32400	SHS1 (SODIUM HYPERSENSITIVE 1)	O.I.	H.G.	S.X.
0.68	86.5	Ta.837.1.S1_at	At3g60490	-	-	1e+0	At3g06435	Expressed protein	O.I.	H.G.	S.X.
0.65	83.9	TaAffx.14473.1.S1_at	At3g60490	-	-	1e+0	At1g59722	unknown protein	O.I.	H.G.	S.X.
0.65	83.9	TaAffx.3194.1.S1_at	At3g60490	-	-	2e+0	At3g12345	unknown protein	O.I.	H.G.	S.X.
0.65	83.9	TaAffx.75772.1.A1_at	At3g60490	-	-	3e-1	At2g36724	unknown protein	O.I.	H.G.	S.X.
0.64	83.6	Ta.13736.1.S1_at	At3g60490	-	-	2e-2	At4g30460	glycine-rich protein	O.I.	H.G.	S.X.
0.64	83.6	TaAffx.48045.1.S1_at	At3g60490	-	-	4e-1	At3g12345	unknown protein	O.I.	H.G.	S.X.
0.63	83.1	Ta.10172.3.A1_x_at	At3g60490	-	-	4e+0	At1g67950	RNA recognition motif (RRM)-containing protein	O.I.	H.G.	S.X.
0.62	82.3	Ta.27896.1.S1_at	At3g60490	-	-	3e+0	At4g15953	-	O.I.	H.G.	S.X.
0.62	82.3	Ta.799.1.S1_x_at	At3g60490	-	-	2e-4	At4g32400	SHS1 (SODIUM HYPERSENSITIVE 1)	O.I.	H.G.	S.X.
0.61	82.0	TaAffx.20889.1.S1_at	At3g60490	-	-	4e+0	At1g02130	ARA-5 (ARABIDOPSIS RAS 5)	O.I.	H.G.	S.X.
0.61	82.0	Ta.10061.1.S1_at	At3g60490	-	-	8e+0	At2g27970	CKS2 (CDK-subunit 2)	O.I.	H.G.	S.X.
0.61	82.0	TaAffx.69473.1.S1_at	At3g60490	-	-	8e+0	At5g55750	hydroxyproline-rich glycoprotein family protein	O.I.	H.G.	S.X.
0.60	81.0	Ta.27567.1.S1_at	At3g60490	-	-	5e+0	At5g06990	unknown protein	O.I.	H.G.	S.X.
0.60	81.0	Ta.10188.1.A1_at	At3g60490	-	-	6e-1	At2g39170	unknown protein	O.I.	H.G.	S.X.
0.59	79.8	Ta.907.1.S1_at	At3g60490	-	-	4e+0	At5g43840	AT-HSFA6A	O.I.	H.G.	S.X.
0.58	79.2	TaAffx.261.1.S1_at	At3g60490	-	-	6e+0	At3g54940	-	O.I.	H.G.	S.X.
0.57	79.2	TaAffx.3389.1.S1_at	At3g60490	-	-	9e-3	At1g06260	cysteine proteinase, putative	O.I.	H.G.	S.X.
0.57	79.2	Ta.9835.1.S1_at	At3g60490	-	-	7e+0	At3g09290	TAC1 (TELOMERASE ACTIVATOR1)	O.I.	H.G.	S.X.
0.56	78.6	Ta.9944.1.S1_at	At3g60490	-	-	1e+1	At5g12236	unknown protein	O.I.	H.G.	S.X.
0.53	74.9	TaAffx.103040.1.S1_at	At3g60490	-	-	3e-1	At5g48240	unknown protein	O.I.	H.G.	S.X.
0.52	73.7	Ta.10099.2.S1_x_at	At3g60490	-	-	4e+0	At5g64520	XRCC2	O.I.	H.G.	S.X.
0.52	73.7	Ta.2002.1.S1_at	At3g60490	-	-	4e-1	At1g75040	PR5 (PATHOGENESIS-RELATED GENE 5)	O.I.	H.G.	S.X.
0.52	73.7	Ta.27779.1.S1_at	At3g60490	-	-	1e+0	At5g19870	unknown protein	O.I.	H.G.	S.X.
0.49	69.7	Ta.25687.1.S1_at	At3g60490	-	-	4e+0	At2g34440	AGL29 (AGAMOUS-LIKE 29)	O.I.	H.G.	S.X.
0.48	69.0	Ta.10046.1.S1_at	At3g60490	-	-	4e+0	At1g71260	ATWHY2 (A. THALIANA WHIRLY 2)	O.I.	H.G.	S.X.
0.47	67.9	Ta.27571.1.S1_at	At3g60490	-	-	6e+0	At5g55125	unknown protein	O.I.	H.G.	S.X.
0.45	65.2	TaAffx.48328.1.S1_at	At3g60490	-	-	6e+0	At5g11640	-	O.I.	H.G.	S.X.
0.30	40.9	TaAffx.107215.2.S1_at	At3g60490	-	-	2e-1	At1g74458	unknown protein	O.I.	H.G.	S.X.

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

Back to the CoP portal site

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Gene ID	Contig17040_at
Gene name
Homology with Arabidopsis	Similar to At3g60490: AP2 domain-containing transcription factor TINY, putative (HF=2e-2)
Module size	6 genes
NF	0.67
%ile	88.8

Co-expression analysis

Gene ID Contig17040_at Gene name Homology with ArabidopsisSimilar to At3g60490: AP2 domain-containing transcription factor TINY, putative (HF=2e-2) Module size 6 genes NF 0.67 %ile 88.8

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_maxOryza_sativaPopulus_trichocarpaVitis_viniferaZea_mays

Gene ID Contig17040_at

Gene name
Homology with Arabidopsis Similar to At3g60490: AP2 domain-containing transcription factor TINY, putative (HF=2e-2)

Module size 6 genes

NF 0.67

%ile 88.8

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