CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g45140

Gene name NRPC2

Module size 5 genes

NF 0.35

%ile 46.8

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
0.50 65.3 1.00 At5g45140 834550 NRPC2 Encodes a subunit of RNA polymerase III (aka RNA polymerase C). O.I. H.G. S.X.
0.53 68.6 0.93 At3g01160 820504 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus;MOFBPVA O.I. H.G. S.X.
0.50 65.3 0.94 At3g11964 820370 RNA binding F:RNA binding;P:mRNA processing, RNA processing;C:nucleolus, plasma membrane;BOMFPA O.I. H.G. S.X.
0.35 41.6 0.93 At2g40700 818665 DEAD/DEAH box helicase, putative (RH17) F:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:unknown;BOMFPAV O.I. H.G. S.X.
0.21 15.8 0.92 At5g14050 831254 transducin family protein / WD-40 repeat family protein F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;BMOFPAV O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.50	65.3	1.00	At5g45140	834550	NRPC2	Encodes a subunit of RNA polymerase III (aka RNA polymerase C).	O.I.	H.G.	S.X.
0.53	68.6	0.93	At3g01160	820504	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cytosol, nucleus;MOFBPVA	O.I.	H.G.	S.X.
0.50	65.3	0.94	At3g11964	820370	RNA binding	F:RNA binding;P:mRNA processing, RNA processing;C:nucleolus, plasma membrane;BOMFPA	O.I.	H.G.	S.X.
0.35	41.6	0.93	At2g40700	818665	DEAD/DEAH box helicase, putative (RH17)	F:helicase activity, ATP binding, ATP-dependent helicase activity, nucleic acid binding;P:unknown;C:unknown;BOMFPAV	O.I.	H.G.	S.X.
0.21	15.8	0.92	At5g14050	831254	transducin family protein / WD-40 repeat family protein	F:nucleotide binding;P:biological_process unknown;C:CUL4 RING ubiquitin ligase complex;BMOFPAV	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
226.1 100.0 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
190.3 100.0 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
106.9 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
94.1 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
70.7 99.9 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
61.8 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.6 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.8 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.7 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
53.6 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.9 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.5 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.9 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.6 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.8 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.2 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.6 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.4 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.2 99.6 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1 99.6 GSM311275 Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
20.8 99.6 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.5 99.6 GSM157327 Hammond_3-11_Potassium-starved-root_Rep2_ATH1 GSE6825 Differential gene expression patterns in potassium-starved and Caesium-treated plants
16.9 99.5 GSM157324 Hammond_3-17_Potassium-starved-root_Rep3_ATH1 GSE6825 Differential gene expression patterns in potassium-starved and Caesium-treated plants
15.6 99.5 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.9 99.4 GSM284389 Arabidopsis GMPE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.0 99.4 GSM179973 Arabidopsis roots, IAA treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.5 99.3 GSM179974 Arabidopsis roots, IAA treatment, replica 2 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.1 99.3 GSM311276 Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
11.9 99.3 E-MEXP-1112-raw-cel-1590665533
11.8 99.3 GSM179963 Arabidopsis aux1 mutant roots, air treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.8 99.2 GSM157315 Hammond_3-5_Potassium-starved-root_Rep1_ATH1 GSE6825 Differential gene expression patterns in potassium-starved and Caesium-treated plants
10.7 99.2 GSM131370 AtGen_6-5322_Genotoxicstress-Roots-3.0h_Rep2 GSE5625 AtGenExpress: Stress Treatments (Genotoxic stress)
10.5 99.2 GSM157328 Hammond_3-12_Caesium-treated-root_Rep2_ATH1 GSE6825 Differential gene expression patterns in potassium-starved and Caesium-treated plants
10.5 99.2 E-MEXP-1112-raw-cel-1590665481
9.6 99.1 GSM290828 root - 04% oxygen - 48h - F GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
9.2 99.1 GSM179976 Arabidopsis ein2 mutant roots, mock treatment, replica 2 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.1 99.1 E-NASC-78-raw-cel-1463195251
9.0 99.1 GSM131429 AtGen_6-8423_Woundingstress-Roots-6.0h_Rep1 GSE5627 AtGenExpress: Stress Treatments (Wounding stress)
8.9 99.0 GSM179972 Arabidopsis roots, mock treatment, replica 2 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8 99.0 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
8.7 99.0 GSM291098 root - 08% oxygen - 48h - F GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.6 99.0 GSM179958 Arabidopsis roots, air treatment, replica 1 GSE7432 Ethylene and auxin interactions in the roots of Arabidopsis seedlings

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
226.1	100.0	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
190.3	100.0	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
106.9	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
94.1	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
70.7	99.9	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
61.8	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
57.6	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.8	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.7	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
53.6	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.9	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.5	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.9	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.6	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.8	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.2	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.6	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.4	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.6	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.2	99.6	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1	99.6	GSM311275	Laser capture microdissected (LCM) micropylar endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
20.8	99.6	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.5	99.6	GSM157327	Hammond_3-11_Potassium-starved-root_Rep2_ATH1	GSE6825	Differential gene expression patterns in potassium-starved and Caesium-treated plants
16.9	99.5	GSM157324	Hammond_3-17_Potassium-starved-root_Rep3_ATH1	GSE6825	Differential gene expression patterns in potassium-starved and Caesium-treated plants
15.6	99.5	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
13.9	99.4	GSM284389	Arabidopsis GMPE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.0	99.4	GSM179973	Arabidopsis roots, IAA treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.5	99.3	GSM179974	Arabidopsis roots, IAA treatment, replica 2	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
12.1	99.3	GSM311276	Laser capture microdissected (LCM) micropylar endospermr at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
11.9	99.3	E-MEXP-1112-raw-cel-1590665533
11.8	99.3	GSM179963	Arabidopsis aux1 mutant roots, air treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
10.8	99.2	GSM157315	Hammond_3-5_Potassium-starved-root_Rep1_ATH1	GSE6825	Differential gene expression patterns in potassium-starved and Caesium-treated plants
10.7	99.2	GSM131370	AtGen_6-5322_Genotoxicstress-Roots-3.0h_Rep2	GSE5625	AtGenExpress: Stress Treatments (Genotoxic stress)
10.5	99.2	GSM157328	Hammond_3-12_Caesium-treated-root_Rep2_ATH1	GSE6825	Differential gene expression patterns in potassium-starved and Caesium-treated plants
10.5	99.2	E-MEXP-1112-raw-cel-1590665481
9.6	99.1	GSM290828	root - 04% oxygen - 48h - F	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
9.2	99.1	GSM179976	Arabidopsis ein2 mutant roots, mock treatment, replica 2	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
9.1	99.1	E-NASC-78-raw-cel-1463195251
9.0	99.1	GSM131429	AtGen_6-8423_Woundingstress-Roots-6.0h_Rep1	GSE5627	AtGenExpress: Stress Treatments (Wounding stress)
8.9	99.0	GSM179972	Arabidopsis roots, mock treatment, replica 2	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings
8.8	99.0	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
8.7	99.0	GSM291098	root - 08% oxygen - 48h - F	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
8.6	99.0	GSM179958	Arabidopsis roots, air treatment, replica 1	GSE7432	Ethylene and auxin interactions in the roots of Arabidopsis seedlings

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.069 1 GO:0006397 Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
0.026 1 GO:0006350 The synthesis of either RNA on a template of DNA or DNA on a template of RNA.
0.024 1 GO:0006396 Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.

SF	Genes	GO ID	Process Name
0.069	1	GO:0006397	Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide.
0.026	1	GO:0006350	The synthesis of either RNA on a template of DNA or DNA on a template of RNA.
0.024	1	GO:0006396	Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.059 1 03020 RNA polymerase
0.026 1 00240 Pyrimidine metabolism
0.018 1 00230 Purine metabolism

SF	Genes	KEGG ID	Pathway name
0.059	1	03020	RNA polymerase
0.026	1	00240	Pyrimidine metabolism
0.018	1	00230	Purine metabolism

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	At5g45140
Gene name	NRPC2
Module size	5 genes
NF	0.35
%ile	46.8

Co-expression analysis

Gene ID At5g45140 Gene name NRPC2 Module size 5 genes NF 0.35 %ile 46.8

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

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG0.059103020RNA polymerase0.026100240Pyrimidine metabolism0.018100230Purine metabolism

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At5g45140

Gene name NRPC2

Module size 5 genes

NF 0.35

%ile 46.8

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

SF Genes KEGG ID Pathway name Link to KEGG
0.059 1 03020 RNA polymerase
0.026 1 00240 Pyrimidine metabolism
0.018 1 00230 Purine metabolism

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays