CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g43110

Gene name APUM14 (Arabidopsis Pumilio 14)

Module size 9 genes

NF 0.38

%ile 52.0

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
0.54 69.5 1.00 At5g43110 834328 APUM14 (Arabidopsis Pumilio 14) F:RNA binding, binding;P:unknown;C:cellular_component unknown;FOMP O.I. H.G. S.X.
0.53 68.6 0.88 At3g11380 820310 pentatricopeptide (PPR) repeat-containing protein F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POMBF O.I. H.G. S.X.
0.46 59.8 0.88 At1g02490 839518 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown O.I. H.G. S.X.
0.44 57.2 0.87 At1g74110 843751 CYP78A10 member of CYP78A O.I. H.G. S.X.
0.36 43.6 0.88 At5g13130 831152 ATP binding F:ATP binding;P:biological_process unknown;C:cellular_component unknown;MOPVBFA O.I. H.G. S.X.
0.33 38.1 0.88 At4g03170 828050 DNA binding F:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;OPMF O.I. H.G. S.X.
0.30 32.1 0.89 At2g42180 818818 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.29 30.3 0.92 At3g52690 824435 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.28 30.3 0.90 At1g33830 840278 avirulence-responsive family protein / avirulence induced gene (AIG1) family protein F:GTP binding;P:response to bacterium;C:cellular_component unknown;MPOB O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.54	69.5	1.00	At5g43110	834328	APUM14 (Arabidopsis Pumilio 14)	F:RNA binding, binding;P:unknown;C:cellular_component unknown;FOMP	O.I.	H.G.	S.X.
0.53	68.6	0.88	At3g11380	820310	pentatricopeptide (PPR) repeat-containing protein	F:molecular_function unknown;P:biological_process unknown;C:mitochondrion;POMBF	O.I.	H.G.	S.X.
0.46	59.8	0.88	At1g02490	839518	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown	O.I.	H.G.	S.X.
0.44	57.2	0.87	At1g74110	843751	CYP78A10	member of CYP78A	O.I.	H.G.	S.X.
0.36	43.6	0.88	At5g13130	831152	ATP binding	F:ATP binding;P:biological_process unknown;C:cellular_component unknown;MOPVBFA	O.I.	H.G.	S.X.
0.33	38.1	0.88	At4g03170	828050	DNA binding	F:DNA binding;P:regulation of transcription, DNA-dependent;C:cellular_component unknown;OPMF	O.I.	H.G.	S.X.
0.30	32.1	0.89	At2g42180	818818	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.29	30.3	0.92	At3g52690	824435	-	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.28	30.3	0.90	At1g33830	840278	avirulence-responsive family protein / avirulence induced gene (AIG1) family protein	F:GTP binding;P:response to bacterium;C:cellular_component unknown;MPOB	O.I.	H.G.	S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.42	53.9	0.81	At2g24140	816948	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;MOPFBAV	O.I.	H.G.	S.X.
0.41	52.4	0.85	At2g20150	816535	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.38	46.7	0.78	At1g76230	843956	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.30	32.1	0.85	At4g14490	827096	forkhead-associated domain-containing protein / FHA domain-containing protein	F:unknown;P:biological_process unknown;C:cellular_component unknown;BOPMFA	O.I.	H.G.	S.X.
0.30	32.1	0.76	At2g43860	818990	polygalacturonase, putative / pectinase, putative	F:polygalacturonase activity;P:carbohydrate metabolic process;C:endomembrane system;FPBOMA	O.I.	H.G.	S.X.
0.29	30.3	0.87	At3g30730	822811	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.26	24.4	0.84	At3g18120	821337	F-box family protein-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.26	24.4	0.84	At1g48800	841302	terpene synthase/cyclase family protein	F:lyase activity, magnesium ion binding;P:metabolic process;C:unknown;PO	O.I.	H.G.	S.X.
0.23	19.3	0.83	At4g15710	827248	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.23	19.3	0.92	At2g02290	814760	NLI interacting factor (NIF) family protein	F:phosphoprotein phosphatase activity;P:biological_process unknown;C:nucleus;OMPF	O.I.	H.G.	S.X.

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
157.2 99.9 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
119.1 99.9 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
90.8 99.9 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
89.2 99.9 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
86.9 99.9 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
86.2 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
85.7 99.9 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
78.0 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
75.0 99.9 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
67.3 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.8 99.8 GSM142750 MJ001_ATH1_A1-jones-WT1 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
65.6 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
64.5 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.9 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
61.4 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
58.0 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.8 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.8 99.8 GSM142751 MJ001_ATH1_A2-jones-WT2 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
50.6 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.3 99.8 GSM131699 ATGE_81_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
49.2 99.8 GSM131697 ATGE_81_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
47.9 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
46.3 99.8 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
45.0 99.8 GSM131698 ATGE_81_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
41.1 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.9 99.7 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
32.2 99.7 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
27.4 99.7 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
27.1 99.7 GSM142754 MJ001_ATH1_A5-jones-WT-Rep3 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
26.8 99.7 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
22.5 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.9 99.6 GSM10451 WT Mature Green Seed 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
20.8 99.6 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.4 99.6 GSM10456 WT Post-Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
16.6 99.5 GSM131700 ATGE_82_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
15.7 99.5 GSM184837 Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7 GSE7639 Expression analysis of root developmental zones after treatment with salt
15.6 99.5 GSM131702 ATGE_82_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
15.4 99.5 GSM133945 Murray_2-1_T0-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
15.4 99.5 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.1 99.4 GSM131701 ATGE_82_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
11.6 99.3 GSM265431 Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2 GSE10497 Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
10.5 99.2 GSM133947 Murray_2-3_T4-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
10.4 99.2 GSM10453 WT Mature Green Seed 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
9.8 99.1 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.6 99.1 GSM184838 Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8 GSE7639 Expression analysis of root developmental zones after treatment with salt
9.0 99.1 E-ATMX-1-raw-cel-1112746267

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
157.2	99.9	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
119.1	99.9	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
90.8	99.9	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
89.2	99.9	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
86.9	99.9	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
86.2	99.9	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
85.7	99.9	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
78.0	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
75.0	99.9	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
67.3	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
66.8	99.8	GSM142750	MJ001_ATH1_A1-jones-WT1	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
65.6	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
64.5	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
61.9	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
61.4	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
58.0	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
51.8	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.8	99.8	GSM142751	MJ001_ATH1_A2-jones-WT2	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
50.6	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.3	99.8	GSM131699	ATGE_81_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
49.2	99.8	GSM131697	ATGE_81_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
47.9	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
46.3	99.8	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
45.0	99.8	GSM131698	ATGE_81_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
41.1	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.9	99.7	GSM184551	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
32.2	99.7	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
27.4	99.7	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
27.1	99.7	GSM142754	MJ001_ATH1_A5-jones-WT-Rep3	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
26.8	99.7	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
22.5	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.9	99.6	GSM10451	WT Mature Green Seed 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
20.8	99.6	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
20.4	99.6	GSM10456	WT Post-Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
16.6	99.5	GSM131700	ATGE_82_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
15.7	99.5	GSM184837	Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 7	GSE7639	Expression analysis of root developmental zones after treatment with salt
15.6	99.5	GSM131702	ATGE_82_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
15.4	99.5	GSM133945	Murray_2-1_T0-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
15.4	99.5	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.1	99.4	GSM131701	ATGE_82_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
11.6	99.3	GSM265431	Arabidopsis, root, longitudinal zone 3, -Fe conditions, rep 2	GSE10497	Expression analysis of root developmental zones after iron deficiency (-Fe) treatment
10.5	99.2	GSM133947	Murray_2-3_T4-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
10.4	99.2	GSM10453	WT Mature Green Seed 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
9.8	99.1	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
9.6	99.1	GSM184838	Arabidopsis, root, longitudinal zone 4, standard conditions, replicate 8	GSE7639	Expression analysis of root developmental zones after treatment with salt
9.0	99.1	E-ATMX-1-raw-cel-1112746267

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.028 1 GO:0009617 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.028	1	GO:0009617	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium.

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	At5g43110
Gene name	APUM14 (Arabidopsis Pumilio 14)
Module size	9 genes
NF	0.38
%ile	52.0

Co-expression analysis

Gene ID At5g43110 Gene name APUM14 (Arabidopsis Pumilio 14) Module size 9 genes NF 0.38 %ile 52.0

Co-expression network

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

Co-expressed genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO0.0281GO:0009617A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium.

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 At5g43110

Gene name APUM14 (Arabidopsis Pumilio 14)

Module size 9 genes

NF 0.38

%ile 52.0

: 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
0.028 1 GO:0009617 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a bacterium.

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