CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g04070

Gene name transposable element gene

Module size 5 genes

NF 0.68

%ile 87.7

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
0.53 68.6 1.00 At4g04070 825718 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.86 93.1 0.89 At2g26120 817152 glycine-rich protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POM O.I. H.G. S.X.
0.75 86.9 0.89 At2g06700 815230 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.73 85.5 0.88 At1g52010 3767438 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.67 81.6 0.89 At5g36650 833629 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.53	68.6	1.00	At4g04070	825718	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.86	93.1	0.89	At2g26120	817152	glycine-rich protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;POM	O.I.	H.G.	S.X.
0.75	86.9	0.89	At2g06700	815230	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.73	85.5	0.88	At1g52010	3767438	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.67	81.6	0.89	At5g36650	833629	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.

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
138.7 99.9 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
118.1 99.9 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
105.1 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
104.6 99.9 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
102.0 99.9 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
101.4 99.9 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
99.6 99.9 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
99.0 99.9 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
96.2 99.9 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
94.3 99.9 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
90.2 99.9 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
79.8 99.9 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5 99.9 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
76.2 99.9 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
76.2 99.9 E-MEXP-98-raw-cel-320188969
75.3 99.9 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
72.6 99.9 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
71.6 99.9 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
70.5 99.9 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
69.0 99.9 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.1 99.8 E-MEXP-1725-raw-cel-1669614623
49.3 99.8 E-MEXP-1725-raw-cel-1669614562
48.8 99.8 E-MEXP-1725-raw-cel-1669614634
44.4 99.8 E-MEXP-98-raw-cel-320188914
43.8 99.8 E-MEXP-1725-raw-cel-1669614582
41.0 99.8 E-MEXP-98-raw-cel-320188694
34.1 99.7 GSM131453 AtGen_6-9321_Heatstress-Roots-3.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
32.8 99.7 E-MEXP-98-raw-cel-320188749
32.0 99.7 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
31.8 99.7 GSM131329 AtGen_6-3621_Saltstress-Roots-24.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
29.5 99.7 GSM131325 AtGen_6-3521_Saltstress-Roots-12.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
29.1 99.7 GSM131454 AtGen_6-9322_Heatstress-Roots-3.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
28.2 99.7 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
26.6 99.7 GSM131449 AtGen_6-9221_Heatstress-Roots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
26.1 99.7 GSM131450 AtGen_6-9222_Heatstress-Roots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
24.6 99.6 GSM131447 AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
22.4 99.6 E-MEXP-1443-raw-cel-1581869745
21.9 99.6 E-MEXP-1443-raw-cel-1581869803
21.9 99.6 GSM131448 AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
21.0 99.6 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.9 99.6 GSM204069 protoplast_hypoxia_rep1 GSE8248 Identification of hypoxia-inducible genes in Arabidopsis mesophyll cells
19.0 99.5 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.6 99.5 E-ATMX-19-raw-cel-1375547479
17.3 99.5 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.2 99.5 GSM131322 AtGen_6-3422_Saltstress-Roots-6.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
16.2 99.5 GSM131451 AtGen_6-9311_Heatstress-Shoots-3.0h_Rep1 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
16.0 99.5 GSM133723 McCormac_1-1_wildtype-NFtreated_Rep1_ATH1 GSE5726 Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
15.1 99.4 GSM270868 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
14.5 99.4 GSM131452 AtGen_6-9312_Heatstress-Shoots-3.0h_Rep2 GSE5628 AtGenExpress: Stress Treatments (Heat stress)
14.0 99.4 GSM270870 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
13.2 99.4 GSM133973 Birnbaum_1-3_src5-3_Rep3_ATH1 GSE5749 A gene expression map of the Arabidopsis root
12.4 99.3 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.2 99.2 GSM133720 Deeken_A-2-Deeke-Inf_SLD_REP1 GSE5725 Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
10.7 99.2 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
10.5 99.2 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
10.2 99.2 GSM271074 Arabidopsis plant (tga2-5-6), 4h_response to phytoprostane A1_rep3 GSE10732 Identification of TGA-regulated genes in response to phytoprostane A1 and OPDA
10.1 99.2 E-MEXP-1299-raw-cel-1519903496
9.6 99.1 GSM133725 McCormac_1-3_mutant-NFtreated_Rep1_ATH1 GSE5726 Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
9.1 99.1 GSM131330 AtGen_6-3622_Saltstress-Roots-24.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
8.8 99.0 GSM131321 AtGen_6-3421_Saltstress-Roots-6.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
138.7	99.9	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
118.1	99.9	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
105.1	99.9	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
104.6	99.9	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
102.0	99.9	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
101.4	99.9	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
99.6	99.9	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
99.0	99.9	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
96.2	99.9	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
94.3	99.9	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
90.2	99.9	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
79.8	99.9	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5	99.9	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
76.2	99.9	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
76.2	99.9	E-MEXP-98-raw-cel-320188969
75.3	99.9	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
72.6	99.9	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
71.6	99.9	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
70.5	99.9	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
69.0	99.9	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.1	99.8	E-MEXP-1725-raw-cel-1669614623
49.3	99.8	E-MEXP-1725-raw-cel-1669614562
48.8	99.8	E-MEXP-1725-raw-cel-1669614634
44.4	99.8	E-MEXP-98-raw-cel-320188914
43.8	99.8	E-MEXP-1725-raw-cel-1669614582
41.0	99.8	E-MEXP-98-raw-cel-320188694
34.1	99.7	GSM131453	AtGen_6-9321_Heatstress-Roots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
32.8	99.7	E-MEXP-98-raw-cel-320188749
32.0	99.7	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
31.8	99.7	GSM131329	AtGen_6-3621_Saltstress-Roots-24.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
29.5	99.7	GSM131325	AtGen_6-3521_Saltstress-Roots-12.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
29.1	99.7	GSM131454	AtGen_6-9322_Heatstress-Roots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
28.2	99.7	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
26.6	99.7	GSM131449	AtGen_6-9221_Heatstress-Roots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
26.1	99.7	GSM131450	AtGen_6-9222_Heatstress-Roots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
24.6	99.6	GSM131447	AtGen_6-9211_Heatstress-Shoots-1.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
22.4	99.6	E-MEXP-1443-raw-cel-1581869745
21.9	99.6	E-MEXP-1443-raw-cel-1581869803
21.9	99.6	GSM131448	AtGen_6-9212_Heatstress-Shoots-1.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
21.0	99.6	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.9	99.6	GSM204069	protoplast_hypoxia_rep1	GSE8248	Identification of hypoxia-inducible genes in Arabidopsis mesophyll cells
19.0	99.5	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.6	99.5	E-ATMX-19-raw-cel-1375547479
17.3	99.5	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.2	99.5	GSM131322	AtGen_6-3422_Saltstress-Roots-6.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
16.2	99.5	GSM131451	AtGen_6-9311_Heatstress-Shoots-3.0h_Rep1	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
16.0	99.5	GSM133723	McCormac_1-1_wildtype-NFtreated_Rep1_ATH1	GSE5726	Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
15.1	99.4	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
14.5	99.4	GSM131452	AtGen_6-9312_Heatstress-Shoots-3.0h_Rep2	GSE5628	AtGenExpress: Stress Treatments (Heat stress)
14.0	99.4	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
13.2	99.4	GSM133973	Birnbaum_1-3_src5-3_Rep3_ATH1	GSE5749	A gene expression map of the Arabidopsis root
12.4	99.3	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.2	99.2	GSM133720	Deeken_A-2-Deeke-Inf_SLD_REP1	GSE5725	Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
10.7	99.2	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
10.5	99.2	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
10.2	99.2	GSM271074	Arabidopsis plant (tga2-5-6), 4h_response to phytoprostane A1_rep3	GSE10732	Identification of TGA-regulated genes in response to phytoprostane A1 and OPDA
10.1	99.2	E-MEXP-1299-raw-cel-1519903496
9.6	99.1	GSM133725	McCormac_1-3_mutant-NFtreated_Rep1_ATH1	GSE5726	Seedling transcriptome affected by Norflurazon-induced photobleaching of chloroplasts
9.1	99.1	GSM131330	AtGen_6-3622_Saltstress-Roots-24.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
8.8	99.0	GSM131321	AtGen_6-3421_Saltstress-Roots-6.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

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

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At4g04070
Gene name	transposable element gene
Module size	5 genes
NF	0.68
%ile	87.7

Co-expression analysis

Gene ID At4g04070 Gene name transposable element gene Module size 5 genes NF 0.68 %ile 87.7

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 More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

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

Gene ID At4g04070

Gene name transposable element gene

Module size 5 genes

NF 0.68

%ile 87.7

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

SF Genes GO ID Process Name Link to AmiGO

SF Genes KEGG ID Pathway name Link to KEGG

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