CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g36090

Gene name transposable element gene

Module size 5 genes

NF 0.39

%ile 54.6

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
0.23 19.3 1.00 At5g36090 833605 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.50 65.3 0.84 At1g23610 838971 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.46 59.8 0.86 At5g12450 831120 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.43 55.3 0.90 At1g59535 842244 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.43 55.3 0.89 At2g05500 815099 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.23	19.3	1.00	At5g36090	833605	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.50	65.3	0.84	At1g23610	838971	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.46	59.8	0.86	At5g12450	831120	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.43	55.3	0.90	At1g59535	842244	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.43	55.3	0.89	At2g05500	815099	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	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
521.0 100.0 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
399.9 100.0 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
285.5 100.0 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
253.2 100.0 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
72.1 99.9 GSM183515 ATR1_OE_rep1 GSE7570 ATR1_like_Clade_OE_and_miR
68.7 99.9 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
61.7 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
60.5 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
54.0 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.4 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.3 99.8 GSM270868 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
50.5 99.8 GSM270870 Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3 GSE10719 Response of Arabidopsis cell culture to phytoprostane A1
50.1 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.4 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.7 99.8 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
43.3 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.5 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.3 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.9 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.9 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.6 99.7 GSM265474 Arabidopsis, whole roots, -Fe, 72 hour, rep 2 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
29.7 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.0 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6 99.7 GSM265473 Arabidopsis, whole roots, -Fe, 72 hour, rep 1 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
27.1 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
26.3 99.7 GSM133293 NO.30 GSE5698 AtGenExpress: Cytokinin treatment of seedlings
25.1 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.4 99.6 E-ATMX-35-raw-cel-1574334816
24.0 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.6 99.6 E-ATMX-35-raw-cel-1574334832
22.5 99.6 E-ATMX-13-raw-cel-1556149919
21.0 99.6 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7 99.5 GSM265471 Arabidopsis, whole roots, -Fe, 48 hour, rep 1 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
18.6 99.5 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
16.9 99.5 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
16.3 99.5 GSM125254 Seedling_OEA3L5_rep1 GSE5465 Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
16.2 99.5 E-ATMX-13-raw-cel-1556149807
15.7 99.5 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.5 99.4 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.8 99.3 GSM125255 Seedling_OEA3L5_rep2 GSE5465 Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
12.8 99.3 E-ATMX-13-raw-cel-1556149871
12.4 99.3 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.3 99.3 GSM125256 Seedling_OETOP6B_rep1 GSE5465 Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
12.1 99.3 GSM265472 Arabidopsis, whole roots, -Fe, 48 hour, rep 2 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
11.3 99.3 E-ATMX-13-raw-cel-1556149759
10.9 99.2 GSM142625 MC002_ATH1_A1.3-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.6 99.2 GSM184151 ATR1_OE_rep2 GSE7570 ATR1_like_Clade_OE_and_miR
10.4 99.2 E-ATMX-35-raw-cel-1574334800
10.3 99.2 GSM75514 Col-0 6h NAA replicate 2 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation
9.9 99.1 GSM75510 Col-0 6h NAA replicate 1 GSE3350 SLR/IAA14-dependent auxin induced lateral root initiation

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
521.0	100.0	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
399.9	100.0	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
285.5	100.0	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
253.2	100.0	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
72.1	99.9	GSM183515	ATR1_OE_rep1	GSE7570	ATR1_like_Clade_OE_and_miR
68.7	99.9	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
61.7	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
60.5	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
54.0	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.4	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.3	99.8	GSM270868	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep2	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
50.5	99.8	GSM270870	Arabidopsis cell culture, 4 h_response to phytoprostane A1_rep3	GSE10719	Response of Arabidopsis cell culture to phytoprostane A1
50.1	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.4	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.7	99.8	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
43.3	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.5	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.3	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.9	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.9	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.6	99.7	GSM265474	Arabidopsis, whole roots, -Fe, 72 hour, rep 2	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
29.7	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.0	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6	99.7	GSM265473	Arabidopsis, whole roots, -Fe, 72 hour, rep 1	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
27.1	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
26.3	99.7	GSM133293	NO.30	GSE5698	AtGenExpress: Cytokinin treatment of seedlings
25.1	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.4	99.6	E-ATMX-35-raw-cel-1574334816
24.0	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.6	99.6	E-ATMX-35-raw-cel-1574334832
22.5	99.6	E-ATMX-13-raw-cel-1556149919
21.0	99.6	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
18.7	99.5	GSM265471	Arabidopsis, whole roots, -Fe, 48 hour, rep 1	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
18.6	99.5	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
16.9	99.5	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
16.3	99.5	GSM125254	Seedling_OEA3L5_rep1	GSE5465	Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
16.2	99.5	E-ATMX-13-raw-cel-1556149807
15.7	99.5	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.5	99.4	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.8	99.3	GSM125255	Seedling_OEA3L5_rep2	GSE5465	Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
12.8	99.3	E-ATMX-13-raw-cel-1556149871
12.4	99.3	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.3	99.3	GSM125256	Seedling_OETOP6B_rep1	GSE5465	Gene expression in wild-type and transgenic plants overexpressing rice topoisomerase6 genes
12.1	99.3	GSM265472	Arabidopsis, whole roots, -Fe, 48 hour, rep 2	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
11.3	99.3	E-ATMX-13-raw-cel-1556149759
10.9	99.2	GSM142625	MC002_ATH1_A1.3-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.6	99.2	GSM184151	ATR1_OE_rep2	GSE7570	ATR1_like_Clade_OE_and_miR
10.4	99.2	E-ATMX-35-raw-cel-1574334800
10.3	99.2	GSM75514	Col-0 6h NAA replicate 2	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation
9.9	99.1	GSM75510	Col-0 6h NAA replicate 1	GSE3350	SLR/IAA14-dependent auxin induced lateral root initiation

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	At5g36090
Gene name	transposable element gene
Module size	5 genes
NF	0.39
%ile	54.6

Co-expression analysis

Gene ID At5g36090 Gene name transposable element gene Module size 5 genes NF 0.39 %ile 54.6

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 At5g36090

Gene name transposable element gene

Module size 5 genes

NF 0.39

%ile 54.6

: 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