CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig12085_at

Gene name
Homology with Arabidopsis Similar to At5g63260: zinc finger (CCCH-type) family protein (HF=1e-2)

Module size 6 genes

NF 0.55

%ile 75.8

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
0.53 69.7 0.93 Contig12085_at Contig12085 - - 1e-2 At5g63260 zinc finger (CCCH-type) family protein O.I. H.G. S.X.
0.60 77.3 0.93 Contig9075_s_at Contig9075 - - 1e-1 At5g59990 - O.I. H.G. S.X.
0.57 74.9 0.93 HV_CEa0003B14r2_at HV_CEa0003B14r2 - - 8e-1 At4g24026 unknown protein O.I. H.G. S.X.
0.55 72.0 0.93 Contig13704_at Contig13704 - - 2e+0 At5g56100 glycine-rich protein / oleosin O.I. H.G. S.X.
0.46 61.0 0.93 Contig20962_at Contig20962 - - 9e-9 At2g33820 MBAC1 O.I. H.G. S.X.
0.38 49.5 0.94 Contig19683_at Contig19683 - - 1e+0 At3g24820 BSD 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.
0.53	69.7	0.93	Contig12085_at	Contig12085	-	-	1e-2	At5g63260	zinc finger (CCCH-type) family protein	O.I.	H.G.	S.X.
0.60	77.3	0.93	Contig9075_s_at	Contig9075	-	-	1e-1	At5g59990	-	O.I.	H.G.	S.X.
0.57	74.9	0.93	HV_CEa0003B14r2_at	HV_CEa0003B14r2	-	-	8e-1	At4g24026	unknown protein	O.I.	H.G.	S.X.
0.55	72.0	0.93	Contig13704_at	Contig13704	-	-	2e+0	At5g56100	glycine-rich protein / oleosin	O.I.	H.G.	S.X.
0.46	61.0	0.93	Contig20962_at	Contig20962	-	-	9e-9	At2g33820	MBAC1	O.I.	H.G.	S.X.
0.38	49.5	0.94	Contig19683_at	Contig19683	-	-	1e+0	At3g24820	BSD 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.
0.71	87.1	0.89	EBpi05_SQ004_B11_at	EBpi05_SQ004_B11	-	-	4e+0	At3g44740	ATP binding / aminoacyl-tRNA ligase/ glycine-tRNA ligase/ nucleotide binding	O.I.	H.G.	S.X.
0.57	74.9	0.91	Contig1867_at	Contig1867	-	-	1e-2	At1g14540	anionic peroxidase, putative	O.I.	H.G.	S.X.
0.46	61.0	0.91	Contig3066_s_at	Contig3066	-	-	3e+0	At3g05950	germin-like protein, putative	O.I.	H.G.	S.X.
0.44	58.9	0.92	Contig188_at	Contig188	-	-	9e-8	At1g08880	H2AXA	O.I.	H.G.	S.X.
0.44	58.9	0.92	Contig1390_M_at	Contig1390_M	actin	-	0	At5g09810	ACT7 (ACTIN 7)	O.I.	H.G.	S.X.
0.44	58.9	0.88	Contig20341_at	Contig20341	-	-	4e+0	At3g28710	H+-transporting two-sector ATPase, putative	O.I.	H.G.	S.X.
0.43	56.4	0.92	Contig13636_at	Contig13636	-	-	9e-3	At2g25650	DNA-binding storekeeper protein-related	O.I.	H.G.	S.X.
0.40	53.1	0.90	Contig5337_at	Contig5337	-	-	7e-1	At5g64250	2-nitropropane dioxygenase family / NPD family	O.I.	H.G.	S.X.
0.40	53.1	0.92	Contig3994_at	Contig3994	-	-	5e-16	At5g03905	hesB-like domain-containing protein	O.I.	H.G.	S.X.
0.40	53.1	0.92	Contig12996_at	Contig12996	-	-	3e+0	At3g10986	unknown protein	O.I.	H.G.	S.X.
0.40	53.1	0.92	Contig2263_s_at	Contig2263	-	-	2e-9	At3g56940	CRD1 (COPPER RESPONSE DEFECT 1)	O.I.	H.G.	S.X.
0.40	53.1	0.93	HVSMEk0016N13r2_at	HVSMEk0016N13r2	-	-	3e-1	At5g03660	unknown protein	O.I.	H.G.	S.X.
0.38	49.5	0.86	Contig4107_x_at	Contig4107	-	-	2e-1	At1g14450	unknown protein	O.I.	H.G.	S.X.
0.38	49.5	0.89	Contig10618_at	Contig10618	-	-	2e+0	At4g19480	unknown protein	O.I.	H.G.	S.X.
0.36	47.1	0.91	HVSMEf0021O19r2_s_at	HVSMEf0021O19r2	-	-	5e-6	At3g02020	AK3 (ASPARTATE KINASE 3)	O.I.	H.G.	S.X.
0.36	47.1	0.94	Contig26498_at	Contig26498	-	-	2e-2	At4g00960	protein kinase family protein	O.I.	H.G.	S.X.
0.35	45.1	0.87	Contig1603_at	Contig1603	-	-	1e-5	At3g04230	40S ribosomal protein S16 (RPS16B)	O.I.	H.G.	S.X.
0.32	40.3	0.88	HVSMEi0003L18r2_at	HVSMEi0003L18r2	-	-	1e+1	At5g64120	peroxidase, putative	O.I.	H.G.	S.X.
0.32	40.3	0.92	Contig21096_at	Contig21096	-	-	5e+0	At3g12930	-	O.I.	H.G.	S.X.
0.31	38.6	0.94	Contig9950_at	Contig9950	-	-	3e-1	At2g27360	lipase, putative	O.I.	H.G.	S.X.
0.29	35.5	0.88	Contig13021_at	Contig13021	-	-	3e+0	At5g66550	Maf family protein	O.I.	H.G.	S.X.
0.27	32.1	0.89	Contig26250_at	Contig26250	-	-	6e+0	At4g38210	ATEXPA20 (ARABIDOPSIS THALIANA EXPANSIN A20)	O.I.	H.G.	S.X.
0.26	30.4	0.88	HK05M22r_at	HK05M22r	-	-	2e+0	At1g35340	ATP-dependent protease La (LON) domain-containing protein	O.I.	H.G.	S.X.
0.25	28.9	0.89	Contig4307_at	Contig4307	-	-	3e+0	At2g27720	60S acidic ribosomal protein P2 (RPP2A)	O.I.	H.G.	S.X.
0.25	28.9	0.91	Contig19665_at	Contig19665	-	-	3e-1	At3g16820	F-box family protein	O.I.	H.G.	S.X.
0.25	28.9	0.91	HU09E15u_at	HU09E15u	-	-	1e+1	At4g37090	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
14.3 99.5 GSM215731 gibberellin treatment rep2 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
12.0 99.3 GSM238417 Endosperm 16DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
12.0 99.3 GSM238418 Endosperm 25DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
10.7 99.2 GSM238416 Endosperm 16DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
10.2 99.1 GSM238419 Endosperm 25DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
8.6 98.8 GSM238414 Endosperm 8DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
7.1 98.4 GSM238424 Endosperm 48 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
6.3 98.1 GSM215728 gibberellin treatment rep1 GSE8712 The effects of Yariv-reagent on barley aleurone GA signaling
5.9 97.9 GSM238427 Endosperm 72 h; Seed germination; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
4.4 96.6 GSM238415 Endosperm 8DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
14.3	99.5	GSM215731	gibberellin treatment rep2	GSE8712	The effects of Yariv-reagent on barley aleurone GA signaling
12.0	99.3	GSM238417	Endosperm 16DAF; Seed development; Rep 2	GSE9365	Expression data from barley maturing and germinating grains
12.0	99.3	GSM238418	Endosperm 25DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
10.7	99.2	GSM238416	Endosperm 16DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
10.2	99.1	GSM238419	Endosperm 25DAF; Seed development; Rep 2	GSE9365	Expression data from barley maturing and germinating grains
8.6	98.8	GSM238414	Endosperm 8DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
7.1	98.4	GSM238424	Endosperm 48 h; Seed germination; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
6.3	98.1	GSM215728	gibberellin treatment rep1	GSE8712	The effects of Yariv-reagent on barley aleurone GA signaling
5.9	97.9	GSM238427	Endosperm 72 h; Seed germination; Rep 2	GSE9365	Expression data from barley maturing and germinating grains
4.4	96.6	GSM238415	Endosperm 8DAF; Seed development; Rep 2	GSE9365	Expression data from barley maturing and germinating grains

Inter-species module comparison

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

Back to the CoP portal site

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Gene ID	Contig12085_at
Gene name
Homology with Arabidopsis	Similar to At5g63260: zinc finger (CCCH-type) family protein (HF=1e-2)
Module size	6 genes
NF	0.55
%ile	75.8

Co-expression analysis

Gene ID Contig12085_at Gene name Homology with ArabidopsisSimilar to At5g63260: zinc finger (CCCH-type) family protein (HF=1e-2) Module size 6 genes NF 0.55 %ile 75.8

Co-expressed genes

Specific experiments for the module

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Arabidopsis_thalianaGlycine_maxOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID Contig12085_at

Gene name
Homology with Arabidopsis Similar to At5g63260: zinc finger (CCCH-type) family protein (HF=1e-2)

Module size 6 genes

NF 0.55

%ile 75.8

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