CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig3332_at

Gene name
Homology with Arabidopsis Similar to At3g21215: RNA-binding protein, putative (HF=2e-1)

Module size 6 genes

NF 0.82

%ile 97.4

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
0.91 98.1 0.96 Contig3332_at Contig3332 - - 2e-1 At3g21215 RNA-binding protein, putative O.I. H.G. S.X.
0.83 94.0 0.95 Contig3334_at Contig3334 - - 2e-53 At3g53610 ATRAB8 O.I. H.G. S.X.
0.83 94.0 0.95 Contig3335_at Contig3335 - - 3e-67 At5g59840 Ras-related GTP-binding family protein O.I. H.G. S.X.
0.83 94.0 0.96 Contig3337_at Contig3337 - - 5e-50 At5g59840 Ras-related GTP-binding family protein O.I. H.G. S.X.
0.63 80.3 0.96 Contig16423_at Contig16423 - - 2e+0 At3g02580 STE1 (STEROL 1) O.I. H.G. S.X.
0.44 58.9 0.96 Contig6860_at Contig6860 - - 8e-4 At5g66815 unknown 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.
0.91	98.1	0.96	Contig3332_at	Contig3332	-	-	2e-1	At3g21215	RNA-binding protein, putative	O.I.	H.G.	S.X.
0.83	94.0	0.95	Contig3334_at	Contig3334	-	-	2e-53	At3g53610	ATRAB8	O.I.	H.G.	S.X.
0.83	94.0	0.95	Contig3335_at	Contig3335	-	-	3e-67	At5g59840	Ras-related GTP-binding family protein	O.I.	H.G.	S.X.
0.83	94.0	0.96	Contig3337_at	Contig3337	-	-	5e-50	At5g59840	Ras-related GTP-binding family protein	O.I.	H.G.	S.X.
0.63	80.3	0.96	Contig16423_at	Contig16423	-	-	2e+0	At3g02580	STE1 (STEROL 1)	O.I.	H.G.	S.X.
0.44	58.9	0.96	Contig6860_at	Contig6860	-	-	8e-4	At5g66815	unknown 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.
0.67	84.7	0.93	Contig6892_s_at	Contig6892	-	-	1e+0	At5g19810	proline-rich extensin-like family protein	O.I.	H.G.	S.X.
0.55	72.0	0.91	Contig19802_at	Contig19802	-	-	3e+0	At5g59300	UBC7 (UBIQUITIN CARRIER PROTEIN 7)	O.I.	H.G.	S.X.
0.53	69.7	0.93	Contig5658_at	Contig5658	-	-	2e-1	At1g23740	oxidoreductase, zinc-binding dehydrogenase family protein	O.I.	H.G.	S.X.
0.50	66.9	0.94	Contig15125_at	Contig15125	-	-	2e-9	At5g43700	ATAUX2-11 (AUXIN INDUCIBLE 2-11)	O.I.	H.G.	S.X.
0.50	66.9	0.94	Contig14248_at	Contig14248	-	-	2e+0	At4g03060	AOP2 (ALKENYL HYDROXALKYL PRODUCING 2)	O.I.	H.G.	S.X.
0.50	66.9	0.94	Contig5612_s_at	Contig5612	-	-	3e-3	At3g47350	short-chain dehydrogenase/reductase (SDR) family protein	O.I.	H.G.	S.X.
0.47	62.2	0.94	Contig7205_at	Contig7205	-	-	2e-2	At2g32550	rcd1-like cell differentiation family protein	O.I.	H.G.	S.X.
0.46	61.0	0.93	Contig3302_at	Contig3302	-	-	3e-1	At2g01100	unknown protein	O.I.	H.G.	S.X.
0.44	58.9	0.91	Contig631_at	Contig631	-	-	2e-19	At5g66280	GMD1 (GDP-D-MANNOSE 4,6-DEHYDRATASE 1)	O.I.	H.G.	S.X.
0.44	58.9	0.94	Contig15074_at	Contig15074	-	-	4e+0	At2g27160	unknown protein	O.I.	H.G.	S.X.
0.44	58.9	0.95	Contig11576_at	Contig11576	-	-	4e-1	At3g58150	-	O.I.	H.G.	S.X.
0.43	56.4	0.94	Contig7285_at	Contig7285	-	-	2e-4	At5g17670	hydrolase, acting on ester bonds	O.I.	H.G.	S.X.
0.42	55.2	0.93	Contig3233_at	Contig3233	-	-	2e+0	At1g12810	proline-rich family protein	O.I.	H.G.	S.X.
0.41	53.9	0.91	Contig13890_at	Contig13890	-	-	3e-32	At3g46920	protein kinase family protein	O.I.	H.G.	S.X.
0.40	53.1	0.92	Contig13579_at	Contig13579	-	-	2e+0	At1g12020	unknown protein	O.I.	H.G.	S.X.
0.40	53.1	0.94	Contig19698_at	Contig19698	-	-	6e-3	At2g33030	AtRLP25 (Receptor Like Protein 25)	O.I.	H.G.	S.X.
0.40	53.1	0.95	Contig10617_at	Contig10617	-	-	6e-2	At5g66490	unknown protein	O.I.	H.G.	S.X.
0.38	49.5	0.94	Contig12867_at	Contig12867	-	-	9e-41	At1g34430	EMB3003 (embryo defective 3003)	O.I.	H.G.	S.X.
0.36	47.1	0.93	Contig15033_at	Contig15033	-	-	2e-16	At3g17850	protein kinase, putative	O.I.	H.G.	S.X.
0.36	47.1	0.96	HA06i14r_s_at	HA06i14r	-	-	8e-4	At5g15650	RGP2 (REVERSIBLY GLYCOSYLATED POLYPEPTIDE 2)	O.I.	H.G.	S.X.
0.35	45.1	0.92	Contig10039_at	Contig10039	-	-	8e-4	At3g46930	protein kinase family protein	O.I.	H.G.	S.X.
0.35	45.1	0.94	Contig5046_at	Contig5046	-	-	3e-6	At3g45280	SYP72 (SYNTAXIN OF PLANTS 72)	O.I.	H.G.	S.X.
0.35	45.1	0.94	Contig4672_at	Contig4672	-	-	4e-71	At5g10840	endomembrane protein 70, putative	O.I.	H.G.	S.X.
0.35	45.1	0.96	rbaak4i15_s_at	rbaak4i15	-	-	2e-6	At5g08680	ATP synthase beta chain, mitochondrial, putative	O.I.	H.G.	S.X.
0.35	45.1	0.93	Contig2053_at	Contig2053	-	-	5e+0	At2g38880	NF-YB1 (NUCLEAR FACTOR Y, SUBUNIT B1)	O.I.	H.G.	S.X.
0.33	42.6	0.92	Contig6600_at	Contig6600	-	-	3e+0	At1g02150	pentatricopeptide (PPR) repeat-containing protein	O.I.	H.G.	S.X.
0.33	42.6	0.93	Contig13124_at	Contig13124	-	-	6e-11	At3g56690	CIP111 (CAM INTERACTING PROTEIN 111)	O.I.	H.G.	S.X.
0.33	42.6	0.93	HM04D16u_s_at	HM04D16u	-	-	3e+0	At5g10400	histone H3	O.I.	H.G.	S.X.
0.33	42.6	0.95	Contig8563_at	Contig8563	-	-	3e-2	At3g04990	-	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig416_x_at	Contig416	-	-	5e-29	At4g24190	SHD (SHEPHERD)	O.I.	H.G.	S.X.
0.31	38.6	0.94	Contig18104_at	Contig18104	-	-	2e-2	At1g63057	unknown protein	O.I.	H.G.	S.X.
0.30	37.0	0.92	Contig7722_at	Contig7722	-	-	4e-5	At5g44210	ERF9 (ERF DOMAIN PROTEIN 9)	O.I.	H.G.	S.X.
0.29	35.5	0.90	Contig14469_at	Contig14469	-	-	6e-7	At3g21250	ATMRP6	O.I.	H.G.	S.X.
0.29	35.5	0.92	Contig9730_at	Contig9730	-	-	2e-3	At5g57120	-	O.I.	H.G.	S.X.
0.29	35.5	0.93	Contig23073_at	Contig23073	-	-	2e-1	At2g04622	unknown protein	O.I.	H.G.	S.X.
0.29	35.5	0.93	Contig16313_at	Contig16313	-	-	1e-1	At1g35170	-	O.I.	H.G.	S.X.
0.29	35.5	0.94	Contig6811_s_at	Contig6811	-	-	5e-1	At1g26470	-	O.I.	H.G.	S.X.
0.29	35.5	0.95	Contig4507_at	Contig4507	-	-	6e+0	At1g61760	harpin-induced protein-related / HIN1-related / harpin-responsive protein-related	O.I.	H.G.	S.X.
0.28	35.5	0.92	Contig1393_at	Contig1393	-	-	1e-42	At3g46520	ACT12 (ACTIN-12)	O.I.	H.G.	S.X.
0.28	35.5	0.95	Contig5749_at	Contig5749	-	-	6e-16	At2g25310	carbohydrate binding	O.I.	H.G.	S.X.
0.25	28.9	0.90	Contig411_at	Contig411	-	-	0	At5g19780	TUA5	O.I.	H.G.	S.X.
0.25	28.9	0.90	Contig7151_at	Contig7151	-	-	5e-12	At4g12610	transcription initiation factor IIF alpha subunit (TFIIF-alpha) family protein	O.I.	H.G.	S.X.
0.25	28.9	0.93	Contig16528_at	Contig16528	-	-	3e-1	At1g65295	unknown protein	O.I.	H.G.	S.X.
0.25	28.9	0.93	EBro08_SQ003_F16_at	EBro08_SQ003_F16	-	-	6e-1	At3g48800	sterile alpha motif (SAM) domain-containing protein	O.I.	H.G.	S.X.
0.25	28.9	0.94	Contig8828_at	Contig8828	-	-	7e-3	At2g38450	-	O.I.	H.G.	S.X.
0.25	28.9	0.94	Contig16272_at	Contig16272	-	-	2e+0	At3g22030	receptor-like protein kinase-related	O.I.	H.G.	S.X.
0.25	28.9	0.95	Contig1302_at	Contig1302	-	-	1e-5	At1g20580	small nuclear ribonucleoprotein, putative / snRNP, putative / Sm protein, putative	O.I.	H.G.	S.X.
0.25	28.9	0.95	Contig4537_at	Contig4537	-	-	3e-36	At5g13120	peptidyl-prolyl cis-trans isomerase cyclophilin-type family 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
5.4 97.5 GSM382232 Root_Hg1 GSE15295 Mercury toxicity in barley roots
5.0 97.2 GSM238431 Embryo 25DAF; Seed development; Rep 2 GSE9365 Expression data from barley maturing and germinating grains
4.9 97.1 GSM238430 Embryo 25DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.3 96.4 GSM238410 Pericarp 8DAF; seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.3 96.4 GSM382233 Root_Hg2 GSE15295 Mercury toxicity in barley roots
4.1 96.2 GSM238432 Embryo 0 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.1 96.2 GSM382235 Root_Control1 GSE15295 Mercury toxicity in barley roots
4.0 96.0 GSM238434 Embryo 24 h; Seed germination; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.0 96.0 GSM238428 Embryo 16DAF; Seed development; Rep 1 GSE9365 Expression data from barley maturing and germinating grains
4.0 96.0 GSM382234 Root_Hg3 GSE15295 Mercury toxicity in barley roots

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
5.4	97.5	GSM382232	Root_Hg1	GSE15295	Mercury toxicity in barley roots
5.0	97.2	GSM238431	Embryo 25DAF; Seed development; Rep 2	GSE9365	Expression data from barley maturing and germinating grains
4.9	97.1	GSM238430	Embryo 25DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
4.3	96.4	GSM238410	Pericarp 8DAF; seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
4.3	96.4	GSM382233	Root_Hg2	GSE15295	Mercury toxicity in barley roots
4.1	96.2	GSM238432	Embryo 0 h; Seed germination; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
4.1	96.2	GSM382235	Root_Control1	GSE15295	Mercury toxicity in barley roots
4.0	96.0	GSM238434	Embryo 24 h; Seed germination; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
4.0	96.0	GSM238428	Embryo 16DAF; Seed development; Rep 1	GSE9365	Expression data from barley maturing and germinating grains
4.0	96.0	GSM382234	Root_Hg3	GSE15295	Mercury toxicity in barley roots

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

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Gene ID	Contig3332_at
Gene name
Homology with Arabidopsis	Similar to At3g21215: RNA-binding protein, putative (HF=2e-1)
Module size	6 genes
NF	0.82
%ile	97.4

Co-expression analysis

Gene ID Contig3332_at Gene name Homology with ArabidopsisSimilar to At3g21215: RNA-binding protein, putative (HF=2e-1) Module size 6 genes NF 0.82 %ile 97.4

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 Contig3332_at

Gene name
Homology with Arabidopsis Similar to At3g21215: RNA-binding protein, putative (HF=2e-1)

Module size 6 genes

NF 0.82

%ile 97.4

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