CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g12990

Gene name unknown protein

Module size 5 genes

NF 0.19

%ile 17.4

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
0.25 22.6 1.00 At4g12990 826912 unknown protein F:molecular_function unknown;P:biological_process unknown;C:plant-type cell wall;P O.I. H.G. S.X.
0.40 50.8 0.81 At2g36370 818210 ubiquitin-protein ligase F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;MPFOBV O.I. H.G. S.X.
0.27 26.2 0.80 At3g05430 819708 PWWP domain-containing protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF O.I. H.G. S.X.
0.14 6.8 0.84 At1g78480 844184 prenyltransferase/squalene oxidase repeat-containing protein F:catalytic activity;P:unknown;C:endomembrane system;PFMOB O.I. H.G. S.X.
0.14 6.8 0.82 At4g24860 828589 AAA-type ATPase family protein F:nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:unknown;C:chloroplast;BOMFPAV O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.25	22.6	1.00	At4g12990	826912	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:plant-type cell wall;P	O.I.	H.G.	S.X.
0.40	50.8	0.81	At2g36370	818210	ubiquitin-protein ligase	F:ubiquitin-protein ligase activity;P:ubiquitin-dependent protein catabolic process;C:unknown;MPFOBV	O.I.	H.G.	S.X.
0.27	26.2	0.80	At3g05430	819708	PWWP domain-containing protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF	O.I.	H.G.	S.X.
0.14	6.8	0.84	At1g78480	844184	prenyltransferase/squalene oxidase repeat-containing protein	F:catalytic activity;P:unknown;C:endomembrane system;PFMOB	O.I.	H.G.	S.X.
0.14	6.8	0.82	At4g24860	828589	AAA-type ATPase family protein	F:nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:unknown;C:chloroplast;BOMFPAV	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
116.5 99.9 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
95.5 99.9 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
88.6 99.9 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
83.3 99.9 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
75.1 99.9 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
68.7 99.9 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
67.4 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
64.7 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
64.3 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
63.0 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
62.1 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
61.4 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
54.8 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.4 99.8 E-MEXP-1443-raw-cel-1581869515
51.1 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.8 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.7 99.8 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
41.4 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
40.1 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
38.1 99.8 E-MEXP-1443-raw-cel-1581869573
31.4 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.6 99.7 GSM291024 root - 08% oxygen - 48h - A GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
24.4 99.6 GSM142635 MC002_ATH1_A5.1-dubos-5kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
23.6 99.6 E-MEXP-1443-raw-cel-1581869745
23.5 99.6 GSM291119 root - 21% oxygen - 48h - A GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
23.1 99.6 E-MEXP-509-raw-cel-829148561
22.5 99.6 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.0 99.6 GSM142637 MC002_ATH1_A5.3-dubos-5kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
21.2 99.6 E-MEXP-1443-raw-cel-1581869803
19.9 99.6 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
19.3 99.6 E-ATMX-31-raw-cel-1516948001
17.3 99.5 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
16.4 99.5 E-ATMX-31-raw-cel-1516947984
15.1 99.4 GSM142636 MC002_ATH1_A5.2-dubos-5kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
13.1 99.4 E-MEXP-509-raw-cel-829148597
12.8 99.3 E-MEXP-509-raw-cel-829148456
12.8 99.3 E-MEXP-509-raw-cel-829148525
12.3 99.3 GSM142631 MC002_ATH1_A3.3-dubos-6kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.8 99.3 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.3 99.2 E-MEXP-828-raw-cel-1156922794
10.3 99.2 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
10.2 99.2 E-MEXP-509-raw-cel-829148772
10.1 99.2 E-MEXP-509-raw-cel-829148420
10.1 99.2 E-MEXP-509-raw-cel-829148348
10.0 99.2 E-ATMX-3-raw-cel-1161357954
9.6 99.1 E-MEXP-509-raw-cel-829148240
9.3 99.1 GSM184476 Lateral Root Cap root cells 2hr KCl control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.2 99.1 GSM134202 Murray_3-1_D1-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
9.2 99.1 E-MEXP-509-raw-cel-829148632
8.8 99.0 E-MEXP-509-raw-cel-829148913
8.8 99.0 E-MEXP-509-raw-cel-829148877
8.7 99.0 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
116.5	99.9	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
95.5	99.9	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
88.6	99.9	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
83.3	99.9	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5	99.9	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
75.1	99.9	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
68.7	99.9	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
67.4	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
64.7	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
64.3	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
63.0	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
62.1	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
61.4	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
54.8	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.4	99.8	E-MEXP-1443-raw-cel-1581869515
51.1	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.8	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.7	99.8	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
41.4	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
40.1	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
38.1	99.8	E-MEXP-1443-raw-cel-1581869573
31.4	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.6	99.7	GSM291024	root - 08% oxygen - 48h - A	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
24.4	99.6	GSM142635	MC002_ATH1_A5.1-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
23.6	99.6	E-MEXP-1443-raw-cel-1581869745
23.5	99.6	GSM291119	root - 21% oxygen - 48h - A	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
23.1	99.6	E-MEXP-509-raw-cel-829148561
22.5	99.6	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
22.0	99.6	GSM142637	MC002_ATH1_A5.3-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
21.2	99.6	E-MEXP-1443-raw-cel-1581869803
19.9	99.6	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
19.3	99.6	E-ATMX-31-raw-cel-1516948001
17.3	99.5	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
16.4	99.5	E-ATMX-31-raw-cel-1516947984
15.1	99.4	GSM142636	MC002_ATH1_A5.2-dubos-5kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
13.1	99.4	E-MEXP-509-raw-cel-829148597
12.8	99.3	E-MEXP-509-raw-cel-829148456
12.8	99.3	E-MEXP-509-raw-cel-829148525
12.3	99.3	GSM142631	MC002_ATH1_A3.3-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.8	99.3	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
10.3	99.2	E-MEXP-828-raw-cel-1156922794
10.3	99.2	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
10.2	99.2	E-MEXP-509-raw-cel-829148772
10.1	99.2	E-MEXP-509-raw-cel-829148420
10.1	99.2	E-MEXP-509-raw-cel-829148348
10.0	99.2	E-ATMX-3-raw-cel-1161357954
9.6	99.1	E-MEXP-509-raw-cel-829148240
9.3	99.1	GSM184476	Lateral Root Cap root cells 2hr KCl control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.2	99.1	GSM134202	Murray_3-1_D1-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
9.2	99.1	E-MEXP-509-raw-cel-829148632
8.8	99.0	E-MEXP-509-raw-cel-829148913
8.8	99.0	E-MEXP-509-raw-cel-829148877
8.7	99.0	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation

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	At4g12990
Gene name	unknown protein
Module size	5 genes
NF	0.19
%ile	17.4

Co-expression analysis

Gene ID At4g12990 Gene name unknown protein Module size 5 genes NF 0.19 %ile 17.4

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 At4g12990

Gene name unknown protein

Module size 5 genes

NF 0.19

%ile 17.4

: 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