CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g30510

Gene name ATRFNR2 (ROOT FNR 2)

Module size 5 genes

NF 0.26

%ile 29.5

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
0.17 10.2 1.00 At1g30510 839930 ATRFNR2 (ROOT FNR 2) Encodes a root-type ferredoxin:NADP(H) oxidoreductase. O.I. H.G. S.X.
0.57 73.8 0.73 At3g27070 822325 TOM20-1 (translocase outer membrane 20-1) Form of TOM20, which is a component of the TOM complex, involved in transport of nuclear-encoded mitochondrial proteins O.I. H.G. S.X.
0.40 50.8 0.69 At5g52710 835348 heavy-metal-associated domain-containing protein F:metal ion binding;P:metal ion transport;C:cellular_component unknown;OMFBPVA O.I. H.G. S.X.
0.36 43.6 0.69 At3g12230 820403 scpl14 (serine carboxypeptidase-like 14) F:serine-type carboxypeptidase activity;P:proteolysis;C:endomembrane system;PMFOB O.I. H.G. S.X.
0.29 30.3 0.71 At1g29020 839776 calcium-binding EF hand family protein F:calcium ion binding;P:unknown;C:endomembrane system;PMOAF O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.17	10.2	1.00	At1g30510	839930	ATRFNR2 (ROOT FNR 2)	Encodes a root-type ferredoxin:NADP(H) oxidoreductase.	O.I.	H.G.	S.X.
0.57	73.8	0.73	At3g27070	822325	TOM20-1 (translocase outer membrane 20-1)	Form of TOM20, which is a component of the TOM complex, involved in transport of nuclear-encoded mitochondrial proteins	O.I.	H.G.	S.X.
0.40	50.8	0.69	At5g52710	835348	heavy-metal-associated domain-containing protein	F:metal ion binding;P:metal ion transport;C:cellular_component unknown;OMFBPVA	O.I.	H.G.	S.X.
0.36	43.6	0.69	At3g12230	820403	scpl14 (serine carboxypeptidase-like 14)	F:serine-type carboxypeptidase activity;P:proteolysis;C:endomembrane system;PMFOB	O.I.	H.G.	S.X.
0.29	30.3	0.71	At1g29020	839776	calcium-binding EF hand family protein	F:calcium ion binding;P:unknown;C:endomembrane system;PMOAF	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
147.2 99.9 GSM133759 Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
44.7 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.3 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.2 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.4 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.0 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.5 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.9 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.8 99.7 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.2 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.7 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.8 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.0 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
25.7 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
24.2 99.6 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.5 99.6 E-MEXP-807-raw-cel-1173273060
22.3 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.6 99.6 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.9 99.6 E-MEXP-807-raw-cel-1173273116
18.2 99.5 E-MEXP-807-raw-cel-1173273223
17.7 99.5 E-MEXP-1094-raw-cel-1379507313
16.8 99.5 GSM13784 Cycloheximide - replicate GSE911 Identification of LEAFY targets during reproductive transition
14.1 99.4 E-MEXP-1094-raw-cel-1379507273
13.3 99.4 E-MEXP-807-raw-cel-1173273170
12.9 99.3 GSM133969 Birnbaum_1-20_LRC-2_Rep2_ATH1 GSE5749 A gene expression map of the Arabidopsis root
12.6 99.3 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.6 99.3 GSM265471 Arabidopsis, whole roots, -Fe, 48 hour, rep 1 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
10.6 99.2 GSM133968 Birnbaum_1-19_LRC-1_Rep1_ATH1 GSE5749 A gene expression map of the Arabidopsis root
10.5 99.2 GSM265472 Arabidopsis, whole roots, -Fe, 48 hour, rep 2 GSE10502 Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
9.4 99.1 GSM13780 Cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
9.0 99.1 E-MEXP-1094-raw-cel-1379507513
9.0 99.1 GSM13779 Dexamethasone plus cycloheximide GSE911 Identification of LEAFY targets during reproductive transition
8.9 99.0 GSM284387 Arabidopsis GSUS4b GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.9 99.0 GSM184477 Lateral Root Cap root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.8 99.0 E-MEXP-1094-raw-cel-1379507553
8.6 99.0 E-NASC-76-raw-cel-1359878900

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
147.2	99.9	GSM133759	Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
44.7	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.1	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.3	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.2	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.4	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.0	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.5	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.9	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.8	99.7	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.2	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.7	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
27.8	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.0	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
25.7	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
24.2	99.6	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.5	99.6	E-MEXP-807-raw-cel-1173273060
22.3	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.6	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
20.9	99.6	E-MEXP-807-raw-cel-1173273116
18.2	99.5	E-MEXP-807-raw-cel-1173273223
17.7	99.5	E-MEXP-1094-raw-cel-1379507313
16.8	99.5	GSM13784	Cycloheximide - replicate	GSE911	Identification of LEAFY targets during reproductive transition
14.1	99.4	E-MEXP-1094-raw-cel-1379507273
13.3	99.4	E-MEXP-807-raw-cel-1173273170
12.9	99.3	GSM133969	Birnbaum_1-20_LRC-2_Rep2_ATH1	GSE5749	A gene expression map of the Arabidopsis root
12.6	99.3	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.6	99.3	GSM265471	Arabidopsis, whole roots, -Fe, 48 hour, rep 1	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
10.6	99.2	GSM133968	Birnbaum_1-19_LRC-1_Rep1_ATH1	GSE5749	A gene expression map of the Arabidopsis root
10.5	99.2	GSM265472	Arabidopsis, whole roots, -Fe, 48 hour, rep 2	GSE10502	Time course expression analysis of the iron deficiency (-Fe) response in Arabidopsis roots
9.4	99.1	GSM13780	Cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
9.0	99.1	E-MEXP-1094-raw-cel-1379507513
9.0	99.1	GSM13779	Dexamethasone plus cycloheximide	GSE911	Identification of LEAFY targets during reproductive transition
8.9	99.0	GSM284387	Arabidopsis GSUS4b	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.9	99.0	GSM184477	Lateral Root Cap root cells 2hr KCl control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.8	99.0	E-MEXP-1094-raw-cel-1379507553
8.6	99.0	E-NASC-76-raw-cel-1359878900

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.095 1 GO:0006626 The process of directing proteins towards and into the mitochondrion, usually mediated by mitochondrial proteins that recognize signals contained within the imported protein.
0.020 1 GO:0030001 The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.
0.016 1 GO:0055114 The process of removal or addition of one or more electrons with or without the concomitant removal or addition of a proton or protons.

SF	Genes	GO ID	Process Name
0.095	1	GO:0006626	The process of directing proteins towards and into the mitochondrion, usually mediated by mitochondrial proteins that recognize signals contained within the imported protein.
0.020	1	GO:0030001	The directed movement of metal ions, any metal ion with an electric charge, into, out of, within or between cells.
0.016	1	GO:0055114	The process of removal or addition of one or more electrons with or without the concomitant removal or addition of a proton or protons.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.026 1 00195 Photosynthesis
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name	Link to KEGG
0.026	1	00195	Photosynthesis
0.002	1	01100	Metabolic pathways

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	At1g30510
Gene name	ATRFNR2 (ROOT FNR 2)
Module size	5 genes
NF	0.26
%ile	29.5

Co-expression analysis

Gene ID At1g30510 Gene name ATRFNR2 (ROOT FNR 2) Module size 5 genes NF 0.26 %ile 29.5

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 KEGG0.026100195Photosynthesis0.002101100Metabolic pathways

Inter-species module comparison

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

Gene ID At1g30510

Gene name ATRFNR2 (ROOT FNR 2)

Module size 5 genes

NF 0.26

%ile 29.5

: 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
0.026 1 00195 Photosynthesis
0.002 1 01100 Metabolic pathways

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