CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Ta.3990.1.S1_at

Gene name
Homology with Arabidopsis Similar to At1g67930: Golgi transport complex protein-related (HF=2e-5)

Module size 6 genes

NF 0.49

%ile 75.2

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
0.71 88.0 0.98 Ta.3990.1.S1_at BJ262866 - - 2e-5 At1g67930 Golgi transport complex protein-related O.I. H.G. S.X.
0.59 79.8 0.98 Ta.13721.2.S1_x_at CA708836 - - 1e+1 At5g42630 ATS (ABERRANT TESTA SHAPE) O.I. H.G. S.X.
0.50 72.4 0.98 Ta.21119.1.S1_a_at CD915118 - - 3e-3 At3g63000 NPL41 (NPL4-LIKE PROTEIN 1) O.I. H.G. S.X.
0.42 60.9 0.98 Ta.1770.1.S1_a_at CK209608 - - 6e-1 At4g32930 unknown protein O.I. H.G. S.X.
0.35 49.8 0.98 Ta.28850.1.S1_at BJ262711 - - 1e-167 At3g09840 CDC48 (CELL DIVISION CYCLE 48) O.I. H.G. S.X.
0.29 39.2 0.98 Ta.7608.1.S1_x_at CD452795 - - 7e-5 At2g17200 ubiquitin family 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	88.0	0.98	Ta.3990.1.S1_at	BJ262866	-	-	2e-5	At1g67930	Golgi transport complex protein-related	O.I.	H.G.	S.X.
0.59	79.8	0.98	Ta.13721.2.S1_x_at	CA708836	-	-	1e+1	At5g42630	ATS (ABERRANT TESTA SHAPE)	O.I.	H.G.	S.X.
0.50	72.4	0.98	Ta.21119.1.S1_a_at	CD915118	-	-	3e-3	At3g63000	NPL41 (NPL4-LIKE PROTEIN 1)	O.I.	H.G.	S.X.
0.42	60.9	0.98	Ta.1770.1.S1_a_at	CK209608	-	-	6e-1	At4g32930	unknown protein	O.I.	H.G.	S.X.
0.35	49.8	0.98	Ta.28850.1.S1_at	BJ262711	-	-	1e-167	At3g09840	CDC48 (CELL DIVISION CYCLE 48)	O.I.	H.G.	S.X.
0.29	39.2	0.98	Ta.7608.1.S1_x_at	CD452795	-	-	7e-5	At2g17200	ubiquitin family 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
4.6 97.0 GSM138146 genotype G13 developing seed at 5 days after anthesis, biological rep1 GSE5939 Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
4.1 96.4 GSM111208 genotype F36 developing seed at 5 days after anthesis, biological rep1 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
3.5 95.4 GSM138161 genotype A91 developing seed at 5 days after anthesis, biological rep3 GSE5939 Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
3.4 95.2 GSM111237 genotype F38b developing seed at 5 days after anthesis, biological rep2 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
3.1 94.5 GSM111215 genotype C58 developing seed at 5 days after anthesis, biological rep2 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
3.1 94.5 GSM138183 genotype A10 developing seed at 5 days after anthesis, biological rep3 GSE5939 Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
2.9 94.0 GSM111193 genotype F38a developing seed at 5 days after anthesis, biological rep2 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
2.8 93.6 GSM111175 genotype G30 developing seed at 5 days after anthesis, biological rep2 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
2.8 93.6 GSM111179 genotype DH95 developing seed at 5 days after anthesis, biological rep2 GSE4935 wheat expression level polymorphism study 39 genotypes 2 biological reps
2.6 92.9 GSM138191 genotype D39 developing seed at 5 days after anthesis, biological rep3 GSE5939 Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
4.6	97.0	GSM138146	genotype G13 developing seed at 5 days after anthesis, biological rep1	GSE5939	Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
4.1	96.4	GSM111208	genotype F36 developing seed at 5 days after anthesis, biological rep1	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
3.5	95.4	GSM138161	genotype A91 developing seed at 5 days after anthesis, biological rep3	GSE5939	Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
3.4	95.2	GSM111237	genotype F38b developing seed at 5 days after anthesis, biological rep2	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
3.1	94.5	GSM111215	genotype C58 developing seed at 5 days after anthesis, biological rep2	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
3.1	94.5	GSM138183	genotype A10 developing seed at 5 days after anthesis, biological rep3	GSE5939	Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location
2.9	94.0	GSM111193	genotype F38a developing seed at 5 days after anthesis, biological rep2	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
2.8	93.6	GSM111175	genotype G30 developing seed at 5 days after anthesis, biological rep2	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
2.8	93.6	GSM111179	genotype DH95 developing seed at 5 days after anthesis, biological rep2	GSE4935	wheat expression level polymorphism study 39 genotypes 2 biological reps
2.6	92.9	GSM138191	genotype D39 developing seed at 5 days after anthesis, biological rep3	GSE5939	Wheat expression level polymorphism study 36 genotypes 2 biological reps from SB location

Inter-species module comparison

A co-expression module including the rice gene, Os05g0378900, orthologous to the query gene, Ta.3990.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.98 100.0 Os05g0378900 At1g67930 - Conserved hypothetical protein 4e-7 At1g67930 Golgi transport complex protein-related O.I. H.G. S.X.
0.47 62.3 Os07g0608300 At1g67930 - Esterase/lipase/thioesterase domain containingprotein 1e-2 At5g20520 WAV2 (WAVY GROWTH 2) O.I. H.G. S.X.
0.42 53.9 Os11g0433500 At1g67930 - Protein transport protein Sec23A (SEC23-relatedprotein A) 1e-9 At4g14160 transport protein, putative O.I. H.G. S.X.
0.42 53.9 Os01g0610500 At1g67930 - Conserved hypothetical protein 1e-14 At3g05280 integral membrane Yip1 family protein O.I. H.G. S.X.
0.39 48.3 Os04g0502200 At1g67930 - Conserved hypothetical protein 1e-7 At5g11040 - O.I. H.G. S.X.
0.39 48.3 Os01g0708100 At1g67930 - N-myristoyltransferase 1(N-myristoyltransferase-like protein) 7e-14 At5g57020 NMT1 (MYRISTOYL-COA:PROTEIN N-MYRISTOYLTRANSFERASE) O.I. H.G. S.X.
0.32 36.3 Os03g0112400 At1g67930 - AP2 adaptor, appendage domain containing protein 5e-2 At5g22770 alpha-ADR (alpha-adaptin) O.I. H.G. S.X.
0.31 34.5 Os08g0156700 At1g67930 - VAP27 2e+0 At4g00170 vesicle-associated membrane family protein / VAMP family protein O.I. H.G. S.X.
0.30 32.7 Os07g0496000 At1g67930 - Nt-rab6 protein 9e-68 At2g44610 RAB6A O.I. H.G. S.X.
0.29 31.1 Os04g0433900 At1g67930 - Chromodomain helicase-DNA-binding protein Mi-2homolog (dMi-2) 2e+0 At4g16880 disease resistance protein-related O.I. H.G. S.X.
0.29 31.1 Os03g0825700 At1g67930 - Defective in exine formation 6e-40 At3g09090 DEX1 (DEFECTIVE IN EXINE FORMATION 1) O.I. H.G. S.X.
0.29 31.1 Os01g0600200 At1g67930 - Ser/Thr specific protein phosphatase 2A Bregulatory subunit beta isoform 4e-37 At1g17720 ATB BETA O.I. H.G. S.X.
0.29 31.1 Os06g0167100 At1g67930 - Gamma-adaptin, C-terminal domain containingprotein 2e-33 At1g60070 binding / clathrin binding / protein binding / protein transporter O.I. H.G. S.X.
0.29 31.1 Os05g0461000 At1g67930 - Clathrin adaptor complex, small chain familyprotein 5e-1 At4g08520 clathrin adaptor complex small chain family protein O.I. H.G. S.X.
0.28 31.1 Os11g0174000 At1g67930 - Adaptin, N-terminal domain containing protein 2e-89 At4g31480 coatomer beta subunit, putative / beta-coat protein, putative / beta-COP, putative O.I. H.G. S.X.
0.27 27.5 Os11g0181100 At1g67930 - Nonaspanin (TM9SF) family protein 2e-70 At1g10950 endomembrane protein 70, putative O.I. H.G. S.X.
0.26 25.6 Os03g0783700 At1g67930 - Clathrin assembly small subunit protein AP19(Clathrin assembly protein AP19, small subunit) 5e-19 At2g17380 AP19 O.I. H.G. S.X.
0.26 25.6 Os03g0130500 At1g67930 - Calcium-binding EF-hand domain containing protein 1e-10 At1g20760 calcium-binding EF hand family protein O.I. H.G. S.X.
0.25 24.1 Os03g0227000 At1g67930 - Coatomer gamma subunit (Gamma-coat protein)(Gamma-COP) 1e-25 At4g34450 coatomer gamma-2 subunit, putative / gamma-2 coat protein, putative / gamma-2 COP, putative O.I. H.G. S.X.
0.24 22.4 Os08g0248900 At1g67930 - ADP-ribosylation factor 3 2e-46 At2g24765 ARF3 (ADP-RIBOSYLATION FACTOR 3) O.I. H.G. S.X.
0.24 22.4 Os01g0511300 At1g67930 - Proteasome component region PCI domain containingprotein 2e-13 At4g19006 26S proteasome regulatory subunit, putative (RPN9) O.I. H.G. S.X.
0.23 21.2 Os06g0143900 At1g67930 - Coatomer protein complex, beta prime 6e-99 At1g52360 coatomer protein complex, subunit beta 2 (beta prime), putative O.I. H.G. S.X.
0.22 19.4 Os08g0550100 At1g67930 - Proteasome component region PCI domain containingprotein 3e-28 At1g20200 EMB2719 (EMBRYO DEFECTIVE 2719) 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.
0.98	100.0	Os05g0378900	At1g67930	-	Conserved hypothetical protein	4e-7	At1g67930	Golgi transport complex protein-related	O.I.	H.G.	S.X.
0.47	62.3	Os07g0608300	At1g67930	-	Esterase/lipase/thioesterase domain containingprotein	1e-2	At5g20520	WAV2 (WAVY GROWTH 2)	O.I.	H.G.	S.X.
0.42	53.9	Os11g0433500	At1g67930	-	Protein transport protein Sec23A (SEC23-relatedprotein A)	1e-9	At4g14160	transport protein, putative	O.I.	H.G.	S.X.
0.42	53.9	Os01g0610500	At1g67930	-	Conserved hypothetical protein	1e-14	At3g05280	integral membrane Yip1 family protein	O.I.	H.G.	S.X.
0.39	48.3	Os04g0502200	At1g67930	-	Conserved hypothetical protein	1e-7	At5g11040	-	O.I.	H.G.	S.X.
0.39	48.3	Os01g0708100	At1g67930	-	N-myristoyltransferase 1(N-myristoyltransferase-like protein)	7e-14	At5g57020	NMT1 (MYRISTOYL-COA:PROTEIN N-MYRISTOYLTRANSFERASE)	O.I.	H.G.	S.X.
0.32	36.3	Os03g0112400	At1g67930	-	AP2 adaptor, appendage domain containing protein	5e-2	At5g22770	alpha-ADR (alpha-adaptin)	O.I.	H.G.	S.X.
0.31	34.5	Os08g0156700	At1g67930	-	VAP27	2e+0	At4g00170	vesicle-associated membrane family protein / VAMP family protein	O.I.	H.G.	S.X.
0.30	32.7	Os07g0496000	At1g67930	-	Nt-rab6 protein	9e-68	At2g44610	RAB6A	O.I.	H.G.	S.X.
0.29	31.1	Os04g0433900	At1g67930	-	Chromodomain helicase-DNA-binding protein Mi-2homolog (dMi-2)	2e+0	At4g16880	disease resistance protein-related	O.I.	H.G.	S.X.
0.29	31.1	Os03g0825700	At1g67930	-	Defective in exine formation	6e-40	At3g09090	DEX1 (DEFECTIVE IN EXINE FORMATION 1)	O.I.	H.G.	S.X.
0.29	31.1	Os01g0600200	At1g67930	-	Ser/Thr specific protein phosphatase 2A Bregulatory subunit beta isoform	4e-37	At1g17720	ATB BETA	O.I.	H.G.	S.X.
0.29	31.1	Os06g0167100	At1g67930	-	Gamma-adaptin, C-terminal domain containingprotein	2e-33	At1g60070	binding / clathrin binding / protein binding / protein transporter	O.I.	H.G.	S.X.
0.29	31.1	Os05g0461000	At1g67930	-	Clathrin adaptor complex, small chain familyprotein	5e-1	At4g08520	clathrin adaptor complex small chain family protein	O.I.	H.G.	S.X.
0.28	31.1	Os11g0174000	At1g67930	-	Adaptin, N-terminal domain containing protein	2e-89	At4g31480	coatomer beta subunit, putative / beta-coat protein, putative / beta-COP, putative	O.I.	H.G.	S.X.
0.27	27.5	Os11g0181100	At1g67930	-	Nonaspanin (TM9SF) family protein	2e-70	At1g10950	endomembrane protein 70, putative	O.I.	H.G.	S.X.
0.26	25.6	Os03g0783700	At1g67930	-	Clathrin assembly small subunit protein AP19(Clathrin assembly protein AP19, small subunit)	5e-19	At2g17380	AP19	O.I.	H.G.	S.X.
0.26	25.6	Os03g0130500	At1g67930	-	Calcium-binding EF-hand domain containing protein	1e-10	At1g20760	calcium-binding EF hand family protein	O.I.	H.G.	S.X.
0.25	24.1	Os03g0227000	At1g67930	-	Coatomer gamma subunit (Gamma-coat protein)(Gamma-COP)	1e-25	At4g34450	coatomer gamma-2 subunit, putative / gamma-2 coat protein, putative / gamma-2 COP, putative	O.I.	H.G.	S.X.
0.24	22.4	Os08g0248900	At1g67930	-	ADP-ribosylation factor 3	2e-46	At2g24765	ARF3 (ADP-RIBOSYLATION FACTOR 3)	O.I.	H.G.	S.X.
0.24	22.4	Os01g0511300	At1g67930	-	Proteasome component region PCI domain containingprotein	2e-13	At4g19006	26S proteasome regulatory subunit, putative (RPN9)	O.I.	H.G.	S.X.
0.23	21.2	Os06g0143900	At1g67930	-	Coatomer protein complex, beta prime	6e-99	At1g52360	coatomer protein complex, subunit beta 2 (beta prime), putative	O.I.	H.G.	S.X.
0.22	19.4	Os08g0550100	At1g67930	-	Proteasome component region PCI domain containingprotein	3e-28	At1g20200	EMB2719 (EMBRYO DEFECTIVE 2719)	O.I.	H.G.	S.X.

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

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Gene ID	Ta.3990.1.S1_at
Gene name
Homology with Arabidopsis	Similar to At1g67930: Golgi transport complex protein-related (HF=2e-5)
Module size	6 genes
NF	0.49
%ile	75.2

Co-expression analysis

Gene ID Ta.3990.1.S1_at Gene name Homology with ArabidopsisSimilar to At1g67930: Golgi transport complex protein-related (HF=2e-5) Module size 6 genes NF 0.49 %ile 75.2

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_trichocarpaVitis_viniferaZea_mays

Gene ID Ta.3990.1.S1_at

Gene name
Homology with Arabidopsis Similar to At1g67930: Golgi transport complex protein-related (HF=2e-5)

Module size 6 genes

NF 0.49

%ile 75.2

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