CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g23840

Gene name HNH endonuclease domain-containing protein

Module size 5 genes

NF 0.49

%ile 69.1

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
0.89 94.6 1.00 At2g23840 816916 HNH endonuclease domain-containing protein F:endonuclease activity, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;OBVPA O.I. H.G. S.X.
0.67 81.6 0.88 At2g46100 819218 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPO O.I. H.G. S.X.
0.50 65.3 0.91 At5g57040 835808 lactoylglutathione lyase family protein / glyoxalase I family protein F:catalytic activity;P:metabolic process;C:chloroplast;BPOM O.I. H.G. S.X.
0.50 65.3 0.91 At5g65840 836713 - F:molecular_function unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast;PMBOF O.I. H.G. S.X.
0.22 17.5 0.89 At1g75460 843882 ATP-dependent protease La (LON) domain-containing protein F:ATP-dependent peptidase activity;P:ATP-dependent proteolysis;C:chloroplast;OBMPF O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.89	94.6	1.00	At2g23840	816916	HNH endonuclease domain-containing protein	F:endonuclease activity, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;OBVPA	O.I.	H.G.	S.X.
0.67	81.6	0.88	At2g46100	819218	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPO	O.I.	H.G.	S.X.
0.50	65.3	0.91	At5g57040	835808	lactoylglutathione lyase family protein / glyoxalase I family protein	F:catalytic activity;P:metabolic process;C:chloroplast;BPOM	O.I.	H.G.	S.X.
0.50	65.3	0.91	At5g65840	836713	-	F:molecular_function unknown;P:biological_process unknown;C:chloroplast stroma, chloroplast;PMBOF	O.I.	H.G.	S.X.
0.22	17.5	0.89	At1g75460	843882	ATP-dependent protease La (LON) domain-containing protein	F:ATP-dependent peptidase activity;P:ATP-dependent proteolysis;C:chloroplast;OBMPF	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
624.8 100.0 GSM311291 Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
378.2 100.0 GSM311292 Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
129.8 99.9 GSM284392 Arabidopsis GCE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
105.0 99.9 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
103.0 99.9 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
101.0 99.9 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
94.4 99.9 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
93.8 99.9 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
81.7 99.9 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5 99.9 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
75.4 99.9 GSM311280 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
73.8 99.9 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
73.3 99.9 GSM311279 Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
71.1 99.9 GSM284394 Arabidopsis GCE3 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
71.0 99.9 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
70.6 99.9 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
68.3 99.9 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
68.0 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.8 99.8 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.8 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
54.0 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.2 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
52.1 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.5 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.4 99.8 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.9 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.8 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.8 99.7 GSM284393 Arabidopsis GCE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
31.5 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
28.5 99.7 GSM133761 Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
27.1 99.7 GSM157307 Gan_1-2_mutant-nitrate-minus(ANM)_Rep1_ATH1 GSE6824 Identification of genes involved in nutritional regulation of root architecture
26.9 99.7 GSM157305 Gan_1-1_wildtype-nitrate-minus(WNM)_Rep1_ATH1 GSE6824 Identification of genes involved in nutritional regulation of root architecture
26.7 99.7 GSM157306 Gan_1-3_wildtype-nitrate-minus(WNM)_Rep2_ATH1 GSE6824 Identification of genes involved in nutritional regulation of root architecture
26.4 99.7 GSM176879 AWP_Control_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
25.2 99.6 GSM218596 Whole roots 3.5hr KNO3 treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
24.2 99.6 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
16.5 99.5 GSM131537 ATGE_25_A GSE5630 AtGenExpress: Developmental series (leaves)
14.8 99.4 GSM131538 ATGE_25_B GSE5630 AtGenExpress: Developmental series (leaves)
14.2 99.4 GSM128683 Underwood_1-36_E.coli-0157-H7-10e8-7h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
13.0 99.4 GSM131539 ATGE_25_C GSE5630 AtGenExpress: Developmental series (leaves)
12.7 99.3 GSM184533 Protoplasted root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.0 99.3 GSM184561 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.2 99.2 GSM218593 Whole roots 3.5hr KCl control treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.4 99.2 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2 99.2 GSM128686 Underwood_1-39_E.coli-TUV86-2-fliC-10e8-7h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.1 99.2 GSM128685 Underwood_1-38_E.coli-TUV86-2-fliC-10e8-7h_Rep1_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.0 99.2 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
8.9 99.0 GSM128682 Underwood_1-35_E.coli-0157-H7-10e8-7h_Rep1_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.8 99.0 GSM184539 Whole roots 2hr KCl control treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.7 99.0 GSM142641 MC002_ATH1_A7.1-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
624.8	100.0	GSM311291	Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
378.2	100.0	GSM311292	Laser capture microdissected (LCM) chalazal endosperm at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
129.8	99.9	GSM284392	Arabidopsis GCE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
105.0	99.9	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
103.0	99.9	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
101.0	99.9	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
94.4	99.9	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
93.8	99.9	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
81.7	99.9	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
79.5	99.9	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
75.4	99.9	GSM311280	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
73.8	99.9	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
73.3	99.9	GSM311279	Laser capture microdissected (LCM) chalazal endosperm at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
71.1	99.9	GSM284394	Arabidopsis GCE3	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
71.0	99.9	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
70.6	99.9	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
68.3	99.9	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
68.0	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.8	99.8	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
64.8	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
54.0	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.2	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
52.1	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.5	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.4	99.8	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
45.9	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.8	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.8	99.7	GSM284393	Arabidopsis GCE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
31.5	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
28.5	99.7	GSM133761	Lindsey_1-13_torpedo-cotyledon_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
27.1	99.7	GSM157307	Gan_1-2_mutant-nitrate-minus(ANM)_Rep1_ATH1	GSE6824	Identification of genes involved in nutritional regulation of root architecture
26.9	99.7	GSM157305	Gan_1-1_wildtype-nitrate-minus(WNM)_Rep1_ATH1	GSE6824	Identification of genes involved in nutritional regulation of root architecture
26.7	99.7	GSM157306	Gan_1-3_wildtype-nitrate-minus(WNM)_Rep2_ATH1	GSE6824	Identification of genes involved in nutritional regulation of root architecture
26.4	99.7	GSM176879	AWP_Control_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
25.2	99.6	GSM218596	Whole roots 3.5hr KNO3 treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
24.2	99.6	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
16.5	99.5	GSM131537	ATGE_25_A	GSE5630	AtGenExpress: Developmental series (leaves)
14.8	99.4	GSM131538	ATGE_25_B	GSE5630	AtGenExpress: Developmental series (leaves)
14.2	99.4	GSM128683	Underwood_1-36_E.coli-0157-H7-10e8-7h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
13.0	99.4	GSM131539	ATGE_25_C	GSE5630	AtGenExpress: Developmental series (leaves)
12.7	99.3	GSM184533	Protoplasted root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.0	99.3	GSM184561	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.2	99.2	GSM218593	Whole roots 3.5hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.4	99.2	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.2	99.2	GSM128686	Underwood_1-39_E.coli-TUV86-2-fliC-10e8-7h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.1	99.2	GSM128685	Underwood_1-38_E.coli-TUV86-2-fliC-10e8-7h_Rep1_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
10.0	99.2	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
8.9	99.0	GSM128682	Underwood_1-35_E.coli-0157-H7-10e8-7h_Rep1_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
8.8	99.0	GSM184539	Whole roots 2hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.7	99.0	GSM142641	MC002_ATH1_A7.1-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

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

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Gene ID	At2g23840
Gene name	HNH endonuclease domain-containing protein
Module size	5 genes
NF	0.49
%ile	69.1

Co-expression analysis

Gene ID At2g23840 Gene name HNH endonuclease domain-containing protein Module size 5 genes NF 0.49 %ile 69.1

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 At2g23840

Gene name HNH endonuclease domain-containing protein

Module size 5 genes

NF 0.49

%ile 69.1

: 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