Co-expression analysis

Gene ID	At2g44610
Gene name	RAB6A
Module size	5 genes
NF	0.48
%ile	68.5

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

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.	O.I.	H.G.	S.X.	Other DB
0.40	50.8	1.00	At2g44610	819069	RAB6A	Encodes a GTP-binding protein with similarity to yeast YPT6 . RAB6 can complement the yeast YTP mutant.	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.67	81.6	0.93	At2g20760	816605	protein binding / structural molecule	F:protein binding, structural molecule activity;P:intracellular protein transport, vesicle-mediated transport;C:plasma membrane;MBOPF	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.57	73.8	0.93	At4g34960	829648	peptidyl-prolyl cis-trans isomerase, putative / cyclophilin, putative / rotamase, putative	F:peptidyl-prolyl cis-trans isomerase activity;P:protein folding;C:Golgi apparatus;BOMFPAV	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.40	50.8	0.95	At2g20420	816561	succinyl-CoA ligase (GDP-forming) beta-chain, mitochondrial, putative / succinyl-CoA synthetase, beta chain, putative / SCS-beta, putative	F:succinate-CoA ligase (GDP-forming) activity, ATP binding;P:response to cadmium ion, metabolic process;C:mitochondrion;OBMFAP	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)
0.40	50.8	0.94	At2g45060	819113	-	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;PMBFO	O.I.	H.G.	S.X.	Please selectTAIR (integral)KEGG (integral)PlantTribes (integral)Gramene (integral)MPSS (genome)InParanoid (ortholog)Plant RBP (ortholog)SIGnAL (T-DNA)RAFL (full-length clone)AtGDB (genome)Genevestigator (expression)eFP Browser (expression)AVT (expression)ATTED-II (co-expression)AtcisDB (cis-element)SUBA (hydropathy)AtProteomePlant Proteome DatabasePMN (pathway)KaPPA-View 4 (pathway)RnR (over-expression)iHOP (report)

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
246.4	100.0	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
199.4	100.0	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
143.9	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
131.7	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
41.9	99.8	GSM154508	Arabidopsis growing pollen tubes rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
37.5	99.7	GSM142635	MC002_ATH1_A5.1-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
36.6	99.7	GSM142624	MC002_ATH1_A1.2-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
32.8	99.7	GSM142637	MC002_ATH1_A5.3-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
32.0	99.7	GSM142623	MC002_ATH1_A1.1-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
31.7	99.7	GSM142625	MC002_ATH1_A1.3-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
31.6	99.7	GSM142629	MC002_ATH1_A3.1-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
31.0	99.7	GSM270865	Arabidopsis cell culture, 4 h_control_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
28.0	99.7	GSM142630	MC002_ATH1_A3.2-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
26.1	99.7	GSM142636	MC002_ATH1_A5.2-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
25.3	99.6	GSM142631	MC002_ATH1_A3.3-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
24.9	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.2	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0	99.6	E-ATMX-13-raw-cel-1556149919
23.7	99.6	GSM154507	Arabidopsis growing pollen tubes rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
23.4	99.6	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.9	99.6	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.1	99.6	E-MEXP-1797-raw-cel-1669767958
22.1	99.6	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.9	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.8	99.6	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.7	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.9	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.4	99.6	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.9	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
19.8	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.6	99.6	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.6	99.6	GSM134208	Murray_3-4_D7-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
19.1	99.6	E-MEXP-1797-raw-cel-1669768084
18.3	99.5	GSM270814	Arabidopsis cell culture, 4 h_control_rep1	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
17.2	99.5	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
16.8	99.5	GSM134206	Murray_3-3_D5-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
16.7	99.5	GSM184539	Whole roots 2hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
16.6	99.5	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.6	99.5	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.3	99.5	E-MEXP-1797-raw-cel-1669767976
16.2	99.5	E-ATMX-13-raw-cel-1556149807
15.8	99.5	E-MEXP-1797-raw-cel-1669768003
15.5	99.5	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.4	99.5	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
15.0	99.4	E-ATMX-13-raw-cel-1556149855
14.9	99.4	E-ATMX-13-raw-cel-1556149903
14.9	99.4	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8	99.4	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.8	99.4	E-MEXP-1797-raw-cel-1669768048
14.5	99.4	GSM142642	MC002_ATH1_A7.2-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
14.0	99.4	GSM142641	MC002_ATH1_A7.1-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
13.8	99.4	E-ATMX-13-raw-cel-1556149839
13.8	99.4	GSM133961	Fukuda_1-6_4B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
13.3	99.4	GSM142643	MC002_ATH1_A7.3-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
13.2	99.4	E-MEXP-1797-raw-cel-1669768057
12.8	99.3	E-MEXP-1797-raw-cel-1669768012
12.5	99.3	E-ATMX-13-raw-cel-1556149727
12.1	99.3	GSM133960	Fukuda_1-5_4A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
11.8	99.3	GSM142655	MC002_ATH1_A11.3-dubos-mxh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.8	99.3	E-MEXP-1797-raw-cel-1669768066
11.5	99.3	E-ATMX-13-raw-cel-1556149871
11.2	99.2	GSM142653	MC002_ATH1_A11.1-dubos-mxh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.1	99.2	GSM270853	Arabidopsis cell culture, 4 h_control_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
10.9	99.2	GSM134204	Murray_3-2_D3-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
10.7	99.2	E-MEXP-1797-raw-cel-1669767985
10.6	99.2	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.3	99.2	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.3	99.2	GSM142647	MC002_ATH1_A9.1-dubos-aah	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.3	99.2	GSM142657	MC002_ATH1_A12.2-dubos-arh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.3	99.2	GSM142658	MC002_ATH1_A12.3-dubos-arh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.2	99.2	GSM131638	ATGE_73_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
10.1	99.2	GSM142906	WW002_ATH1_A2-willa-ISOX-REP2	GSE6181	Assembly of the cell wall pectic matrix.
10.0	99.2	E-MEXP-265-raw-cel-414617783
9.9	99.1	GSM239251	Columbia glabrous (C24) wild type pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.7	99.1	GSM142662	MB002_ATH1_A2-Eland-ch2	GSE6153	Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
9.6	99.1	E-ATMX-13-raw-cel-1556149823
9.5	99.1	GSM142632	MC002_ATH1_A4.1-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.5	99.1	E-MEXP-1797-raw-cel-1669767967
9.4	99.1	GSM142645	MC002_ATH1_A8.2-dubos-aih	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.3	99.1	E-ATMX-31-raw-cel-1516947899
9.2	99.1	GSM142905	WW002_ATH1_A1-willa-CON-REP3	GSE6181	Assembly of the cell wall pectic matrix.
9.1	99.1	E-ATMX-31-raw-cel-1516947882
9.1	99.1	GSM142649	MC002_ATH1_A9.3-dubos-aah	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1	99.1	GSM133948	Murray_2-4_T6-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
8.9	99.0	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
8.9	99.0	E-ATMX-13-raw-cel-1556149791
8.9	99.0	GSM142628	MC002_ATH1_A2.3-dubos-wtc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.8	99.0	GSM142656	MC002_ATH1_A12.1-dubos-arh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.7	99.0	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.6	99.0	GSM142634	MC002_ATH1_A4.3-dubos-6kc	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Biological processes inferred to relate to the module

SF	Genes	GO ID	Process Name	Link to AmiGO
0.250	1	GO:0032940	The controlled release of a substance by a cell.
0.016	1	GO:0016192	The directed movement of substances into, out of or within a cell by a cellular process that begins with the formation of membrane-bounded vesicles in which the transported substances are enclosed or located in the vesicle membrane. Vesicles are then targeted to, and fuse with, an acceptor membrane.
0.012	1	GO:0006886	The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.

KEGG PATHWAY inferred to related to the module

SF	Genes	KEGG ID	Pathway name	Link to KEGG
0.083	1	00640	Propanoate metabolism
0.030	1	00020	Citrate cycle (TCA cycle)
0.013	1	01066	Biosynthesis of alkaloids derived from terpenoid and polyketide

Inter-species module comparison

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

Glycine_max

Hordeum_vulgare

Oryza_sativa

Populus_trichocarpa

Triticum_aestivum

Vitis_vinifera

Zea_mays

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