CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g02200

Gene name transposable element gene

Module size 6 genes

NF 0.57

%ile 78.2

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
0.31 33.8 1.00 At2g02200 3768149 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.80 89.8 0.91 At5g30440 3770957 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.73 85.5 0.90 At1g29480 839825 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBP O.I. H.G. S.X.
0.71 84.2 0.90 At3g30730 822811 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.63 78.1 0.89 At1g36670 840575 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.63 78.1 0.93 At5g28950 833021 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMF O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.31	33.8	1.00	At2g02200	3768149	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.80	89.8	0.91	At5g30440	3770957	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.73	85.5	0.90	At1g29480	839825	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;OBP	O.I.	H.G.	S.X.
0.71	84.2	0.90	At3g30730	822811	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.63	78.1	0.89	At1g36670	840575	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.63	78.1	0.93	At5g28950	833021	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMF	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
48.7 99.8 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
46.4 99.8 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.6 99.8 GSM265423 Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
37.9 99.8 GSM184836 Arabidopsis, root, longitudinal zone 3, standard conditions, replicate 6 GSE7639 Expression analysis of root developmental zones after treatment with salt
34.7 99.7 GSM184835 Arabidopsis, root, longitudinal zone 3, standard conditions, replicate 5 GSE7639 Expression analysis of root developmental zones after treatment with salt
33.8 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.2 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.0 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.7 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.6 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.3 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.9 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.6 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.3 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.0 99.7 E-MEXP-1443-raw-cel-1581869745
31.0 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.0 99.7 E-MEXP-1443-raw-cel-1581869803
30.7 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.8 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.5 99.7 GSM265431 Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
28.4 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.0 99.7 GSM265430 Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
27.9 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.7 99.6 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.7 99.6 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9 99.6 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.8 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.5 99.6 E-MEXP-449-raw-cel-676423362
17.8 99.5 GSM133778 Lindsey_1-2_globular-apical_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
17.5 99.5 E-MEXP-807-raw-cel-1173273170
16.6 99.5 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.1 99.5 GSM184910 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
14.7 99.4 GSM134316 Penfield_1-18_embryo-PAC_Rep3_ATH1 GSE5751 The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
14.1 99.4 E-MEXP-807-raw-cel-1173273116
13.9 99.4 GSM184911 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
13.5 99.4 GSM265422 Arabidopsis, root, longitudinal zone 3, standard conditions, rep1 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
13.4 99.4 GSM184844 Arabidopsis, root, longitudinal zone 3, standard conditions, NaCl, replicate 2 GSE7639 Expression analysis of root developmental zones after treatment with salt
12.7 99.3 GSM184843 Arabidopsis, root, longitudinal zone 3, standard conditions, NaCl, replicate 1 GSE7639 Expression analysis of root developmental zones after treatment with salt
12.5 99.3 E-MEXP-807-raw-cel-1173273060
12.3 99.3 GSM266670 Arabidopsis, root cells, cortex, -Fe, replicate 2 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.6 99.3 E-MEXP-807-raw-cel-1173273144
11.4 99.3 E-MEXP-1725-raw-cel-1669614634
11.2 99.2 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.9 99.2 E-MEXP-807-raw-cel-1173273196
10.9 99.2 GSM133985 Birnbaum_1-15_StageIII-4_Rep4_ATH1 GSE5749 A gene expression map of the Arabidopsis root
10.7 99.2 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
10.4 99.2 GSM133983 Birnbaum_1-13_StageIII-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
10.0 99.2 GSM134311 Penfield_1-13_embryo-ABA_Rep1_ATH1 GSE5751 The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
9.8 99.1 E-MEXP-807-raw-cel-1173273252
9.1 99.1 GSM134314 Penfield_1-16_embryo-PAC_Rep1_ATH1 GSE5751 The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
9.0 99.1 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
8.8 99.0 GSM184891 Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
8.6 99.0 GSM134315 Penfield_1-17_embryo-PAC_Rep2_ATH1 GSE5751 The early post-germinative embryo and endosperm transcriptomes in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
48.7	99.8	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
46.4	99.8	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.6	99.8	GSM265423	Arabidopsis, root, longitudinal zone 3, standard conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
37.9	99.8	GSM184836	Arabidopsis, root, longitudinal zone 3, standard conditions, replicate 6	GSE7639	Expression analysis of root developmental zones after treatment with salt
34.7	99.7	GSM184835	Arabidopsis, root, longitudinal zone 3, standard conditions, replicate 5	GSE7639	Expression analysis of root developmental zones after treatment with salt
33.8	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.2	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.0	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.7	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.6	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.3	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.9	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.6	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.3	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.0	99.7	E-MEXP-1443-raw-cel-1581869745
31.0	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.0	99.7	E-MEXP-1443-raw-cel-1581869803
30.7	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.8	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.5	99.7	GSM265431	Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
28.4	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.0	99.7	GSM265430	Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
27.9	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.7	99.6	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.7	99.6	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.9	99.6	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.8	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.5	99.6	E-MEXP-449-raw-cel-676423362
17.8	99.5	GSM133778	Lindsey_1-2_globular-apical_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
17.5	99.5	E-MEXP-807-raw-cel-1173273170
16.6	99.5	GSM133755	Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.1	99.5	GSM184910	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
14.7	99.4	GSM134316	Penfield_1-18_embryo-PAC_Rep3_ATH1	GSE5751	The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
14.1	99.4	E-MEXP-807-raw-cel-1173273116
13.9	99.4	GSM184911	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
13.5	99.4	GSM265422	Arabidopsis, root, longitudinal zone 3, standard conditions, rep1	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
13.4	99.4	GSM184844	Arabidopsis, root, longitudinal zone 3, standard conditions, NaCl, replicate 2	GSE7639	Expression analysis of root developmental zones after treatment with salt
12.7	99.3	GSM184843	Arabidopsis, root, longitudinal zone 3, standard conditions, NaCl, replicate 1	GSE7639	Expression analysis of root developmental zones after treatment with salt
12.5	99.3	E-MEXP-807-raw-cel-1173273060
12.3	99.3	GSM266670	Arabidopsis, root cells, cortex, -Fe, replicate 2	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
11.6	99.3	E-MEXP-807-raw-cel-1173273144
11.4	99.3	E-MEXP-1725-raw-cel-1669614634
11.2	99.2	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.9	99.2	E-MEXP-807-raw-cel-1173273196
10.9	99.2	GSM133985	Birnbaum_1-15_StageIII-4_Rep4_ATH1	GSE5749	A gene expression map of the Arabidopsis root
10.7	99.2	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
10.4	99.2	GSM133983	Birnbaum_1-13_StageIII-2_Rep2_ATH1	GSE5749	A gene expression map of the Arabidopsis root
10.0	99.2	GSM134311	Penfield_1-13_embryo-ABA_Rep1_ATH1	GSE5751	The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
9.8	99.1	E-MEXP-807-raw-cel-1173273252
9.1	99.1	GSM134314	Penfield_1-16_embryo-PAC_Rep1_ATH1	GSE5751	The early post-germinative embryo and endosperm transcriptomes in Arabidopsis
9.0	99.1	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
8.8	99.0	GSM184891	Arabidopsis, root cells, epidermis and lateral root cap, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
8.6	99.0	GSM134315	Penfield_1-17_embryo-PAC_Rep2_ATH1	GSE5751	The early post-germinative embryo and endosperm transcriptomes in Arabidopsis

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	At2g02200
Gene name	transposable element gene
Module size	6 genes
NF	0.57
%ile	78.2

Co-expression analysis

Gene ID At2g02200 Gene name transposable element gene Module size 6 genes NF 0.57 %ile 78.2

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 At2g02200

Gene name transposable element gene

Module size 6 genes

NF 0.57

%ile 78.2

: 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