CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g23570

Gene name SGS3 (SUPPRESSOR OF GENE SILENCING 3)

Module size 26 genes

NF 0.54

%ile 75.8

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
0.55 70.6 1.00 At5g23570 832422 SGS3 (SUPPRESSOR OF GENE SILENCING 3) Required for posttranscriptional gene silencing and natural virus resistance.SGS3 is a member of an 'unknown' protein family. Members of this family have predicted coiled coiled domains suggesting oligomerization and a potential zinc finger domain. Involved in the production of trans-acting siRNAs, through direct or indirect stabilization of cleavage fragments of the primary ta-siRNA transcript. Acts before RDR6 in this pathway. O.I. H.G. S.X.
0.73 85.5 0.79 At5g16950 831558 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.71 84.2 0.81 At2g40650 818660 pre-mRNA splicing factor PRP38 family protein F:binding;P:RNA processing;C:cellular_component unknown;MBOFPVA O.I. H.G. S.X.
0.69 82.9 0.79 At3g50690 824233 leucine-rich repeat family protein F:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.66 80.1 0.77 At1g74250 843765 DNAJ heat shock N-terminal domain-containing protein F:heat shock protein binding, zinc ion binding, nucleic acid binding;P:protein folding;C:intracellular;MOBFPVA O.I. H.G. S.X.
0.66 80.1 0.81 At3g02760 820930 ATP binding / aminoacyl-tRNA ligase/ histidine-tRNA ligase/ nucleotide binding F:histidine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:histidyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:chloroplast, cytoplasm;OBMFAP O.I. H.G. S.X.
0.64 78.9 0.79 At1g53720 841810 CYP59 (CYCLOPHILIN 59) Encodes a cyclophilin, member of a family modular proteins consisting of a peptidyl-prolyl cis� trans isomerase (PPIase) domain, followed by an RNA recognition motif (RRM), and a C-terminal domain enriched in charged amino acids. Interacts with with SCL33/SR33 and with a majority of Arabidopsis SR proteins and the largest subunit of RNA polymerase II. Localizes to the nucleus, but it does not significantly colocalize with SR proteins in nuclear speckles. O.I. H.G. S.X.
0.61 76.7 0.76 At3g07780 819969 OBE1 (OBERON1) Encodes a nuclear PHD finger protein that is functionally redundant with OBE2 and plays an important role in the maintenance and/or establishment of the root and shoot apical meristems. O.I. H.G. S.X.
0.61 76.7 0.82 At5g23890 832454 - F:unknown;P:unknown;C:mitochondrion, chloroplast thylakoid membrane, chloroplast, plastid, chloroplast envelope;MOBFPAV O.I. H.G. S.X.
0.60 75.7 0.81 At4g29940 829117 PRHA (PATHOGENESIS RELATED HOMEODOMAIN PROTEIN A) Homeodomain protein (PRHA). Expression of the gene differs in various vegetative and floral plant tissues and is positively influenced by the phytohormone auxin. It is often associated with regions of developing vascular tissue. The prha promoter is highly responsive to the synthetic auxin, naphthalene acetic acid, in transient assays using tobacco protoplasts. The PRHA protein has the capacity to bind to TAATTG core sequence elements but requires additional adjacent bases for high-affinity binding. O.I. H.G. S.X.
0.58 73.8 0.83 At3g24490 822039 transcription factor F:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;MOPFBV O.I. H.G. S.X.
0.57 73.8 0.80 At1g15200 838086 protein-protein interaction regulator family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.54 69.5 0.76 At5g19900 832112 PRLI-interacting factor, putative F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFPBVA O.I. H.G. S.X.
0.54 69.5 0.76 At1g28420 839740 HB-1 (homeobox-1) F:transcription factor activity;P:regulation of transcription, DNA-dependent, regulation of transcription;C:nucleus;MOFBPVA O.I. H.G. S.X.
0.54 69.5 0.76 At5g61310 836252 cytochrome c oxidase subunit Vc, putative / COX5C, putative F:cytochrome-c oxidase activity;P:unknown;C:mitochondrial respiratory chain, endomembrane system;P O.I. H.G. S.X.
0.52 67.4 0.85 At1g18950 838476 aminoacyl-tRNA synthetase family F:aminoacyl-tRNA ligase activity;P:biological_process unknown;C:unknown;MOFBPVA O.I. H.G. S.X.
0.51 66.3 0.76 At1g65440 842855 GTB1 Related to yeast Spt6 protein, which functions as part of a protein complex in transcription initiation and also plays a role in chromatin structure / assembly. O.I. H.G. S.X.
0.49 63.5 0.83 At2g06210 815177 ELF8 (EARLY FLOWERING 8) Encodes a yeast CTR9 homolog that is involved in the control of flowering time by elevating FLC expression to a level that creates the vernalization-responsive, winter-annual habit. Yeast CTR9 is a component of a five-member PAF1 complex that associates with RNA pol II and is thought to regulate gene expression by recruiting SET1 (a histone 3 Lys 4 [H3-K4] methyl transferase) to the initially transcribed [5'] regions of target chromatin. Mutants display reduced H3-K4 methylation in both FLC and FLM chromatin. O.I. H.G. S.X.
0.49 63.5 0.77 At2g39260 818511 RNA binding / binding / protein binding F:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.47 61.2 0.80 At1g03830 839398 guanylate-binding family protein F:GTP binding, GTPase activity;P:immune response;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.47 61.2 0.75 At3g51270 824290 ATP binding / catalytic/ protein serine/threonine kinase F:protein serine/threonine kinase activity, catalytic activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.47 61.2 0.75 At3g18100 821335 MYB4R1 (myb domain protein 4R1) Member of the R2R3 transcription factor gene family. O.I. H.G. S.X.
0.46 59.8 0.86 At1g68790 843210 LINC3 (LITTLE NUCLEI3) F:unknown;P:biological_process unknown;C:nucleolus;MOBFPAV O.I. H.G. S.X.
0.41 52.4 0.81 At3g29310 822589 calmodulin-binding protein-related F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MOFPBV O.I. H.G. S.X.
0.40 50.8 0.74 At5g05210 830403 nucleolar matrix protein-related F:unknown;P:unknown;C:cellular_component unknown;MOFBPVA O.I. H.G. S.X.
0.38 46.7 0.76 At5g55670 835661 RNA recognition motif (RRM)-containing protein F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MBOFPVA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.55	70.6	1.00	At5g23570	832422	SGS3 (SUPPRESSOR OF GENE SILENCING 3)	Required for posttranscriptional gene silencing and natural virus resistance.SGS3 is a member of an 'unknown' protein family. Members of this family have predicted coiled coiled domains suggesting oligomerization and a potential zinc finger domain. Involved in the production of trans-acting siRNAs, through direct or indirect stabilization of cleavage fragments of the primary ta-siRNA transcript. Acts before RDR6 in this pathway.	O.I.	H.G.	S.X.
0.73	85.5	0.79	At5g16950	831558	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.71	84.2	0.81	At2g40650	818660	pre-mRNA splicing factor PRP38 family protein	F:binding;P:RNA processing;C:cellular_component unknown;MBOFPVA	O.I.	H.G.	S.X.
0.69	82.9	0.79	At3g50690	824233	leucine-rich repeat family protein	F:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.66	80.1	0.77	At1g74250	843765	DNAJ heat shock N-terminal domain-containing protein	F:heat shock protein binding, zinc ion binding, nucleic acid binding;P:protein folding;C:intracellular;MOBFPVA	O.I.	H.G.	S.X.
0.66	80.1	0.81	At3g02760	820930	ATP binding / aminoacyl-tRNA ligase/ histidine-tRNA ligase/ nucleotide binding	F:histidine-tRNA ligase activity, aminoacyl-tRNA ligase activity, nucleotide binding, ATP binding;P:histidyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:chloroplast, cytoplasm;OBMFAP	O.I.	H.G.	S.X.
0.64	78.9	0.79	At1g53720	841810	CYP59 (CYCLOPHILIN 59)	Encodes a cyclophilin, member of a family modular proteins consisting of a peptidyl-prolyl cis� trans isomerase (PPIase) domain, followed by an RNA recognition motif (RRM), and a C-terminal domain enriched in charged amino acids. Interacts with with SCL33/SR33 and with a majority of Arabidopsis SR proteins and the largest subunit of RNA polymerase II. Localizes to the nucleus, but it does not significantly colocalize with SR proteins in nuclear speckles.	O.I.	H.G.	S.X.
0.61	76.7	0.76	At3g07780	819969	OBE1 (OBERON1)	Encodes a nuclear PHD finger protein that is functionally redundant with OBE2 and plays an important role in the maintenance and/or establishment of the root and shoot apical meristems.	O.I.	H.G.	S.X.
0.61	76.7	0.82	At5g23890	832454	-	F:unknown;P:unknown;C:mitochondrion, chloroplast thylakoid membrane, chloroplast, plastid, chloroplast envelope;MOBFPAV	O.I.	H.G.	S.X.
0.60	75.7	0.81	At4g29940	829117	PRHA (PATHOGENESIS RELATED HOMEODOMAIN PROTEIN A)	Homeodomain protein (PRHA). Expression of the gene differs in various vegetative and floral plant tissues and is positively influenced by the phytohormone auxin. It is often associated with regions of developing vascular tissue. The prha promoter is highly responsive to the synthetic auxin, naphthalene acetic acid, in transient assays using tobacco protoplasts. The PRHA protein has the capacity to bind to TAATTG core sequence elements but requires additional adjacent bases for high-affinity binding.	O.I.	H.G.	S.X.
0.58	73.8	0.83	At3g24490	822039	transcription factor	F:transcription factor activity;P:regulation of transcription;C:cellular_component unknown;MOPFBV	O.I.	H.G.	S.X.
0.57	73.8	0.80	At1g15200	838086	protein-protein interaction regulator family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.54	69.5	0.76	At5g19900	832112	PRLI-interacting factor, putative	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;OMFPBVA	O.I.	H.G.	S.X.
0.54	69.5	0.76	At1g28420	839740	HB-1 (homeobox-1)	F:transcription factor activity;P:regulation of transcription, DNA-dependent, regulation of transcription;C:nucleus;MOFBPVA	O.I.	H.G.	S.X.
0.54	69.5	0.76	At5g61310	836252	cytochrome c oxidase subunit Vc, putative / COX5C, putative	F:cytochrome-c oxidase activity;P:unknown;C:mitochondrial respiratory chain, endomembrane system;P	O.I.	H.G.	S.X.
0.52	67.4	0.85	At1g18950	838476	aminoacyl-tRNA synthetase family	F:aminoacyl-tRNA ligase activity;P:biological_process unknown;C:unknown;MOFBPVA	O.I.	H.G.	S.X.
0.51	66.3	0.76	At1g65440	842855	GTB1	Related to yeast Spt6 protein, which functions as part of a protein complex in transcription initiation and also plays a role in chromatin structure / assembly.	O.I.	H.G.	S.X.
0.49	63.5	0.83	At2g06210	815177	ELF8 (EARLY FLOWERING 8)	Encodes a yeast CTR9 homolog that is involved in the control of flowering time by elevating FLC expression to a level that creates the vernalization-responsive, winter-annual habit. Yeast CTR9 is a component of a five-member PAF1 complex that associates with RNA pol II and is thought to regulate gene expression by recruiting SET1 (a histone 3 Lys 4 [H3-K4] methyl transferase) to the initially transcribed [5'] regions of target chromatin. Mutants display reduced H3-K4 methylation in both FLC and FLM chromatin.	O.I.	H.G.	S.X.
0.49	63.5	0.77	At2g39260	818511	RNA binding / binding / protein binding	F:protein binding, RNA binding, binding;P:translation, RNA metabolic process;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.47	61.2	0.80	At1g03830	839398	guanylate-binding family protein	F:GTP binding, GTPase activity;P:immune response;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.47	61.2	0.75	At3g51270	824290	ATP binding / catalytic/ protein serine/threonine kinase	F:protein serine/threonine kinase activity, catalytic activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.47	61.2	0.75	At3g18100	821335	MYB4R1 (myb domain protein 4R1)	Member of the R2R3 transcription factor gene family.	O.I.	H.G.	S.X.
0.46	59.8	0.86	At1g68790	843210	LINC3 (LITTLE NUCLEI3)	F:unknown;P:biological_process unknown;C:nucleolus;MOBFPAV	O.I.	H.G.	S.X.
0.41	52.4	0.81	At3g29310	822589	calmodulin-binding protein-related	F:molecular_function unknown;P:biological_process unknown;C:plasma membrane;MOFPBV	O.I.	H.G.	S.X.
0.40	50.8	0.74	At5g05210	830403	nucleolar matrix protein-related	F:unknown;P:unknown;C:cellular_component unknown;MOFBPVA	O.I.	H.G.	S.X.
0.38	46.7	0.76	At5g55670	835661	RNA recognition motif (RRM)-containing protein	F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MBOFPVA	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
41.7 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.2 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.7 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.6 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.7 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.3 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.9 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.8 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.6 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.4 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.0 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.6 99.7 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.4 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.8 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.5 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.2 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.3 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.3 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.7 99.6 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
20.8 99.6 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
19.2 99.6 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
19.0 99.5 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.0 99.5 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.7 99.5 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
14.4 99.4 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.1 99.4 GSM311289 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
12.6 99.3 GSM311290 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.2 99.2 E-MEXP-807-raw-cel-1173273252

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
41.7	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.2	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.7	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.6	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.7	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.3	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.9	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.8	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.6	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.4	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.0	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.6	99.7	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.4	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.8	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
30.5	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.2	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.3	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.3	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.7	99.6	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
20.8	99.6	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
19.2	99.6	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
19.0	99.5	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
17.0	99.5	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
15.7	99.5	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.4	99.4	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
13.1	99.4	GSM311289	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
12.6	99.3	GSM311290	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.2	99.2	E-MEXP-807-raw-cel-1173273252

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.069 1 GO:0006427 The process of coupling histidine to histidyl-tRNA, catalyzed by histidyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
0.069 1 GO:0010071 The specification of a meristem which will give rise to a primary or lateral root.
0.067 1 GO:0006955 Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.

SF	Genes	GO ID	Process Name
0.069	1	GO:0006427	The process of coupling histidine to histidyl-tRNA, catalyzed by histidyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
0.069	1	GO:0010071	The specification of a meristem which will give rise to a primary or lateral root.
0.067	1	GO:0006955	Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.027 1 00970 Aminoacyl-tRNA biosynthesis

SF	Genes	KEGG ID	Pathway name	Link to KEGG
0.027	1	00970	Aminoacyl-tRNA biosynthesis

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

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Gene ID	At5g23570
Gene name	SGS3 (SUPPRESSOR OF GENE SILENCING 3)
Module size	26 genes
NF	0.54
%ile	75.8

Co-expression analysis

Gene ID At5g23570 Gene name SGS3 (SUPPRESSOR OF GENE SILENCING 3) Module size 26 genes NF 0.54 %ile 75.8

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 KEGG0.027100970Aminoacyl-tRNA biosynthesis

Inter-species module comparison

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

Gene ID At5g23570

Gene name SGS3 (SUPPRESSOR OF GENE SILENCING 3)

Module size 26 genes

NF 0.54

%ile 75.8

: 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
0.027 1 00970 Aminoacyl-tRNA biosynthesis

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