CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g38035

Gene name transposable element gene

Module size 9 genes

NF 0.30

%ile 37.6

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
1.00 100.0 1.00 At5g38035 3771352 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.44 57.2 0.75 At2g07693 3768137 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.38 46.7 0.76 At4g29710 829092 phosphodiesterase/nucleotide pyrophosphatase-related F:catalytic activity;P:metabolic process;C:cellular_component unknown;MBFPOV O.I. H.G. S.X.
0.29 30.3 0.76 At2g07736 3768150 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.27 26.2 0.75 At2g07682 3768187 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.23 19.3 0.75 At3g42900 3769508 transposable element gene F:unknown;P:unknown;C:unknown O.I. H.G. S.X.
0.21 15.8 0.76 At1g60300 842325 apical meristem formation protein-related F:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;P O.I. H.G. S.X.
0.21 15.8 0.75 At2g07701 815376 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.08 2.3 0.76 At1g78095 3767719 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.
1.00	100.0	1.00	At5g38035	3771352	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.44	57.2	0.75	At2g07693	3768137	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.38	46.7	0.76	At4g29710	829092	phosphodiesterase/nucleotide pyrophosphatase-related	F:catalytic activity;P:metabolic process;C:cellular_component unknown;MBFPOV	O.I.	H.G.	S.X.
0.29	30.3	0.76	At2g07736	3768150	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.27	26.2	0.75	At2g07682	3768187	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.23	19.3	0.75	At3g42900	3769508	transposable element gene	F:unknown;P:unknown;C:unknown	O.I.	H.G.	S.X.
0.21	15.8	0.76	At1g60300	842325	apical meristem formation protein-related	F:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.21	15.8	0.75	At2g07701	815376	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.08	2.3	0.76	At1g78095	3767719	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
133.6 99.9 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
113.9 99.9 GSM184478 Lateral Root Cap root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
108.4 99.9 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
104.5 99.9 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
101.7 99.9 GSM184477 Lateral Root Cap root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
95.2 99.9 GSM184483 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
52.9 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.1 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
50.7 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.2 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.5 99.8 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.9 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
44.0 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
42.9 99.8 GSM184480 Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
41.8 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.8 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.6 99.8 E-ATMX-35-raw-cel-1574334832
40.6 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.6 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.7 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.2 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.5 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.8 99.7 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
31.4 99.7 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
29.4 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.9 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4 99.7 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
28.0 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.0 99.7 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
26.8 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.9 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.8 99.6 E-ATMX-35-raw-cel-1574334800
24.3 99.6 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
24.0 99.6 GSM184907 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
23.2 99.6 E-MEXP-509-raw-cel-829148703
22.6 99.6 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
22.1 99.6 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.5 99.6 E-ATMX-35-raw-cel-1574334816
19.5 99.6 E-MEXP-509-raw-cel-829148420
19.5 99.6 GSM184908 Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
18.9 99.5 GSM184484 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
18.5 99.5 GSM184482 Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
18.1 99.5 GSM284398 Arabidopsis GGSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
17.1 99.5 E-MEXP-509-raw-cel-829148597
17.0 99.5 E-MEXP-1443-raw-cel-1581869573
16.1 99.5 E-MEXP-509-raw-cel-829148348
15.2 99.4 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.9 99.4 E-MEXP-1443-raw-cel-1581869515
13.1 99.4 GSM184910 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
12.5 99.3 GSM176878 AWP_AL_Txed_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.3 99.3 GSM184479 Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.9 99.3 E-MEXP-509-raw-cel-829148129
11.7 99.3 E-MEXP-509-raw-cel-829148201
11.7 99.3 GSM284394 Arabidopsis GCE3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
11.1 99.2 E-MEXP-509-raw-cel-829148385
10.5 99.2 GSM284397 Arabidopsis GGSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.4 99.2 GSM266665 Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
9.5 99.1 E-MEXP-509-raw-cel-829148456
9.4 99.1 GSM184911 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
8.9 99.0 GSM184920 Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
8.8 99.0 E-MEXP-509-raw-cel-829148772
8.6 99.0 E-MEXP-509-raw-cel-829148561

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
133.6	99.9	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
113.9	99.9	GSM184478	Lateral Root Cap root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
108.4	99.9	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
104.5	99.9	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
101.7	99.9	GSM184477	Lateral Root Cap root cells 2hr KCl control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
95.2	99.9	GSM184483	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
52.9	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.1	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
50.7	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.2	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.5	99.8	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.9	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
44.0	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
42.9	99.8	GSM184480	Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
41.8	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.8	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.6	99.8	E-ATMX-35-raw-cel-1574334832
40.6	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.6	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.7	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.1	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.2	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.5	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
33.8	99.7	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
31.4	99.7	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
29.4	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.9	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4	99.7	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
28.0	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.0	99.7	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
26.8	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.9	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.8	99.6	E-ATMX-35-raw-cel-1574334800
24.3	99.6	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
24.0	99.6	GSM184907	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
23.2	99.6	E-MEXP-509-raw-cel-829148703
22.6	99.6	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
22.1	99.6	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
20.5	99.6	E-ATMX-35-raw-cel-1574334816
19.5	99.6	E-MEXP-509-raw-cel-829148420
19.5	99.6	GSM184908	Arabidopsis, root cells, epidermis and lateral root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
18.9	99.5	GSM184484	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
18.5	99.5	GSM184482	Lateral Root Cap root cells 2hr continuous KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
18.1	99.5	GSM284398	Arabidopsis GGSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
17.1	99.5	E-MEXP-509-raw-cel-829148597
17.0	99.5	E-MEXP-1443-raw-cel-1581869573
16.1	99.5	E-MEXP-509-raw-cel-829148348
15.2	99.4	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.9	99.4	E-MEXP-1443-raw-cel-1581869515
13.1	99.4	GSM184910	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
12.5	99.3	GSM176878	AWP_AL_Txed_2	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
12.3	99.3	GSM184479	Lateral Root Cap root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.9	99.3	E-MEXP-509-raw-cel-829148129
11.7	99.3	E-MEXP-509-raw-cel-829148201
11.7	99.3	GSM284394	Arabidopsis GCE3	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
11.1	99.2	E-MEXP-509-raw-cel-829148385
10.5	99.2	GSM284397	Arabidopsis GGSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.4	99.2	GSM266665	Arabidopsis, root cells, epidermis and lateral root cap, -Fe, replicate 4	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
9.5	99.1	E-MEXP-509-raw-cel-829148456
9.4	99.1	GSM184911	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
8.9	99.0	GSM184920	Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
8.8	99.0	E-MEXP-509-raw-cel-829148772
8.6	99.0	E-MEXP-509-raw-cel-829148561

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	At5g38035
Gene name	transposable element gene
Module size	9 genes
NF	0.30
%ile	37.6

Co-expression analysis

Gene ID At5g38035 Gene name transposable element gene Module size 9 genes NF 0.30 %ile 37.6

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 At5g38035

Gene name transposable element gene

Module size 9 genes

NF 0.30

%ile 37.6

: 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