CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g00840

Gene name zinc ion binding

Module size 34 genes

NF 0.32

%ile 40.8

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
0.65 79.6 1.00 At4g00840 826193 zinc ion binding F:zinc ion binding;P:biological_process unknown;C:endomembrane system;MOFP O.I. H.G. S.X.
0.55 70.6 0.87 At3g60720 825243 PDLP8 (PLASMODESMATA-LOCATED PROTEIN 8) Encodes a plasmodesmal protein that may be involved in the intercellular movement of molecules through the plasmodesmata. The protein has two DUF26 domains and a single transmembrane domain. O.I. H.G. S.X.
0.48 62.5 0.87 At5g51290 835203 ceramide kinase-related F:diacylglycerol kinase activity;P:activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway;C:cellular_component unknown;MOPBF O.I. H.G. S.X.
0.46 59.8 0.92 At3g18350 821364 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.46 59.8 0.89 At4g00590 827968 asparaginase 2 family protein F:hydrolase activity;P:unknown;C:unknown;BOMFPA O.I. H.G. S.X.
0.45 58.3 0.87 At3g55820 824748 - F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB O.I. H.G. S.X.
0.43 55.3 0.90 At5g45370 834573 nodulin-related / integral membrane family protein F:unknown;P:unknown;C:membrane;BOPAMF O.I. H.G. S.X.
0.43 55.3 0.89 At4g20310 827778 metalloendopeptidase F:metalloendopeptidase activity;P:proteolysis;C:membrane;MAPOBF O.I. H.G. S.X.
0.42 53.9 0.87 At1g63730 842677 disease resistance protein (TIR-NBS-LRR class), putative F:protein binding, transmembrane receptor activity, nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:defense response;C:intrinsic to membrane;PMBOAF O.I. H.G. S.X.
0.41 52.4 0.88 At4g16320 - - O.I. H.G. S.X.
0.38 46.7 0.88 At5g40820 834082 ATRAD3 Encodes a Arabidopsis ortholog of the ATR protein kinase that is involved in a wide range of responses to DNA damage and plays a central role in cell-cycle regulation. Dominant loss of function alleles identified as suppressors of ALS also exhibit increased tolerance to aluminum. This may be due to the inhibition of terminal differentiation of the root apex upon exposure to Al. O.I. H.G. S.X.
0.36 43.6 0.88 At4g15240 827190 fringe-related protein F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:Golgi apparatus;PMFO O.I. H.G. S.X.
0.35 41.6 0.88 At1g19010 838482 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFB O.I. H.G. S.X.
0.34 39.8 0.88 At2g31340 817692 emb1381 (embryo defective 1381) F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P O.I. H.G. S.X.
0.34 39.8 0.90 At4g31150 829243 endonuclease V family protein F:endonuclease activity;P:DNA repair;C:cellular_component unknown;BAOMPF O.I. H.G. S.X.
0.33 38.1 0.87 At4g29560 829077 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM O.I. H.G. S.X.
0.33 38.1 0.87 At4g14790 827134 ATSUV3 encodes a nuclear-encoded DExH box RNA helicase, which is localized to mitochondria and whose in vitro ATPase activity is stimulated with mitochondrial RNA. O.I. H.G. S.X.
0.33 38.1 0.89 At3g50430 824207 unknown protein F:unknown;P:unknown;C:unknown;MP O.I. H.G. S.X.
0.32 35.7 0.88 At3g63290 825504 unknown protein F:molecular_function unknown;P:pollen development;C:cellular_component unknown;FPOB O.I. H.G. S.X.
0.30 32.1 0.88 At2g35540 818119 DNAJ heat shock N-terminal domain-containing protein F:heat shock protein binding;P:protein folding;C:cellular_component unknown;BMOPFA O.I. H.G. S.X.
0.28 30.3 0.89 At1g08060 837322 MOM (MORPHEUS MOLECULE) F:unknown;P:chromatin silencing;C:nucleus;MFOBPVA O.I. H.G. S.X.
0.25 22.6 0.87 At5g51690 835243 ACS12 Encodes an aminotransferase with broad specificity for aspartate and aromatic amino aids such as tyrosine and phenylalanine. It does not act on branched chain amino acids and does not have ACC synthase activity. O.I. H.G. S.X.
0.24 20.7 0.87 At2g17970 816307 oxidoreductase, 2OG-Fe(II) oxygenase family protein F:oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;PMOB O.I. H.G. S.X.
0.23 19.3 0.88 At4g17895 827513 UBP20 (UBIQUITIN-SPECIFIC PROTEASE 20) Encodes a ubiquitin-specific protease. O.I. H.G. S.X.
0.23 19.3 0.89 At2g32760 817836 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOB O.I. H.G. S.X.
0.23 19.3 0.87 At1g30970 839984 SUF4 (suppressor of FRIGIDA4) Encodes SUF4 (SUPPRESSOR of FRI 4), a putative zinc-finger-containing transcription factor that is required for delayed flowering in winter-annual Arabidopsis. suf4 mutations strongly suppress the late-flowering phenotype of FRI (FRIGIDA) mutants. suf4 mutants also show reduced H3K4 trimethylation at FLC (FLOWERING LOCUS C), a floral inhibitor. SUF4 may act to specifically recruit a putative histone H3 methyltransferase EFS (EARLY FLOWERING IN SHORT DAYS) and the PAF1-like complex to the FLC locus. O.I. H.G. S.X.
0.23 19.3 0.87 At5g23150 832379 HUA2 (ENHANCER OF AG-4 2) Putative transcription factor. Member of the floral homeotic AGAMOUS pathway.Mutations in HUA enhance the phenotype of mild ag-4 allele. Single hua mutants are early flowering and have reduced levels of FLC mRNA. Other MADS box flowering time genes such as FLM and MAF2 also appear to be regulated by HUA2. HUA2 normally activates FLC expression and enhances AG function. O.I. H.G. S.X.
0.21 15.8 0.88 At1g08960 837416 CAX11 member of Potassium-dependent sodium-calcium exchanger like-family O.I. H.G. S.X.
0.21 15.8 0.88 At4g19490 827690 protein binding Putative homolog of yeast Vps54. Thought to associate with POK and ATVPS53 in a plant GARP-like complex involved in the membrane trafficking system. O.I. H.G. S.X.
0.20 14.4 0.89 At2g23140 816846 binding / ubiquitin-protein ligase F:ubiquitin-protein ligase activity, binding;P:protein ubiquitination;C:ubiquitin ligase complex;OPMFBVA O.I. H.G. S.X.
0.20 14.4 0.90 At1g74860 843825 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBV O.I. H.G. S.X.
0.17 10.2 0.87 At5g47400 834787 unknown protein F:molecular_function unknown;P:unknown;C:endomembrane system;MPO O.I. H.G. S.X.
0.17 10.2 0.88 At5g64390 836560 HEN4 (HUA ENHANCER 4) encodes a K homology (KH) domain-containing, putative RNA binding protein that interacts with HUA1, a CCCH zinc finger RNA binding protein in the nucleus. HEN4 acts redundantly with HUA1 and HUA2 in the specification of floral organ identity in the third whorl. O.I. H.G. S.X.
0.17 10.2 0.89 At1g51390 841563 NFU5 Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU4 than to NFU1,2, and 3. Targeted to the mitochondrion. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.65	79.6	1.00	At4g00840	826193	zinc ion binding	F:zinc ion binding;P:biological_process unknown;C:endomembrane system;MOFP	O.I.	H.G.	S.X.
0.55	70.6	0.87	At3g60720	825243	PDLP8 (PLASMODESMATA-LOCATED PROTEIN 8)	Encodes a plasmodesmal protein that may be involved in the intercellular movement of molecules through the plasmodesmata. The protein has two DUF26 domains and a single transmembrane domain.	O.I.	H.G.	S.X.
0.48	62.5	0.87	At5g51290	835203	ceramide kinase-related	F:diacylglycerol kinase activity;P:activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway;C:cellular_component unknown;MOPBF	O.I.	H.G.	S.X.
0.46	59.8	0.92	At3g18350	821364	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.46	59.8	0.89	At4g00590	827968	asparaginase 2 family protein	F:hydrolase activity;P:unknown;C:unknown;BOMFPA	O.I.	H.G.	S.X.
0.45	58.3	0.87	At3g55820	824748	-	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;PB	O.I.	H.G.	S.X.
0.43	55.3	0.90	At5g45370	834573	nodulin-related / integral membrane family protein	F:unknown;P:unknown;C:membrane;BOPAMF	O.I.	H.G.	S.X.
0.43	55.3	0.89	At4g20310	827778	metalloendopeptidase	F:metalloendopeptidase activity;P:proteolysis;C:membrane;MAPOBF	O.I.	H.G.	S.X.
0.42	53.9	0.87	At1g63730	842677	disease resistance protein (TIR-NBS-LRR class), putative	F:protein binding, transmembrane receptor activity, nucleoside-triphosphatase activity, nucleotide binding, ATP binding;P:defense response;C:intrinsic to membrane;PMBOAF	O.I.	H.G.	S.X.
0.41	52.4	0.88	At4g16320		-	-	O.I.	H.G.	S.X.
0.38	46.7	0.88	At5g40820	834082	ATRAD3	Encodes a Arabidopsis ortholog of the ATR protein kinase that is involved in a wide range of responses to DNA damage and plays a central role in cell-cycle regulation. Dominant loss of function alleles identified as suppressors of ALS also exhibit increased tolerance to aluminum. This may be due to the inhibition of terminal differentiation of the root apex upon exposure to Al.	O.I.	H.G.	S.X.
0.36	43.6	0.88	At4g15240	827190	fringe-related protein	F:transferase activity, transferring glycosyl groups;P:biological_process unknown;C:Golgi apparatus;PMFO	O.I.	H.G.	S.X.
0.35	41.6	0.88	At1g19010	838482	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFB	O.I.	H.G.	S.X.
0.34	39.8	0.88	At2g31340	817692	emb1381 (embryo defective 1381)	F:molecular_function unknown;P:embryonic development ending in seed dormancy;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.34	39.8	0.90	At4g31150	829243	endonuclease V family protein	F:endonuclease activity;P:DNA repair;C:cellular_component unknown;BAOMPF	O.I.	H.G.	S.X.
0.33	38.1	0.87	At4g29560	829077	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PM	O.I.	H.G.	S.X.
0.33	38.1	0.87	At4g14790	827134	ATSUV3	encodes a nuclear-encoded DExH box RNA helicase, which is localized to mitochondria and whose in vitro ATPase activity is stimulated with mitochondrial RNA.	O.I.	H.G.	S.X.
0.33	38.1	0.89	At3g50430	824207	unknown protein	F:unknown;P:unknown;C:unknown;MP	O.I.	H.G.	S.X.
0.32	35.7	0.88	At3g63290	825504	unknown protein	F:molecular_function unknown;P:pollen development;C:cellular_component unknown;FPOB	O.I.	H.G.	S.X.
0.30	32.1	0.88	At2g35540	818119	DNAJ heat shock N-terminal domain-containing protein	F:heat shock protein binding;P:protein folding;C:cellular_component unknown;BMOPFA	O.I.	H.G.	S.X.
0.28	30.3	0.89	At1g08060	837322	MOM (MORPHEUS MOLECULE)	F:unknown;P:chromatin silencing;C:nucleus;MFOBPVA	O.I.	H.G.	S.X.
0.25	22.6	0.87	At5g51690	835243	ACS12	Encodes an aminotransferase with broad specificity for aspartate and aromatic amino aids such as tyrosine and phenylalanine. It does not act on branched chain amino acids and does not have ACC synthase activity.	O.I.	H.G.	S.X.
0.24	20.7	0.87	At2g17970	816307	oxidoreductase, 2OG-Fe(II) oxygenase family protein	F:oxidoreductase activity;P:biological_process unknown;C:cellular_component unknown;PMOB	O.I.	H.G.	S.X.
0.23	19.3	0.88	At4g17895	827513	UBP20 (UBIQUITIN-SPECIFIC PROTEASE 20)	Encodes a ubiquitin-specific protease.	O.I.	H.G.	S.X.
0.23	19.3	0.89	At2g32760	817836	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOB	O.I.	H.G.	S.X.
0.23	19.3	0.87	At1g30970	839984	SUF4 (suppressor of FRIGIDA4)	Encodes SUF4 (SUPPRESSOR of FRI 4), a putative zinc-finger-containing transcription factor that is required for delayed flowering in winter-annual Arabidopsis. suf4 mutations strongly suppress the late-flowering phenotype of FRI (FRIGIDA) mutants. suf4 mutants also show reduced H3K4 trimethylation at FLC (FLOWERING LOCUS C), a floral inhibitor. SUF4 may act to specifically recruit a putative histone H3 methyltransferase EFS (EARLY FLOWERING IN SHORT DAYS) and the PAF1-like complex to the FLC locus.	O.I.	H.G.	S.X.
0.23	19.3	0.87	At5g23150	832379	HUA2 (ENHANCER OF AG-4 2)	Putative transcription factor. Member of the floral homeotic AGAMOUS pathway.Mutations in HUA enhance the phenotype of mild ag-4 allele. Single hua mutants are early flowering and have reduced levels of FLC mRNA. Other MADS box flowering time genes such as FLM and MAF2 also appear to be regulated by HUA2. HUA2 normally activates FLC expression and enhances AG function.	O.I.	H.G.	S.X.
0.21	15.8	0.88	At1g08960	837416	CAX11	member of Potassium-dependent sodium-calcium exchanger like-family	O.I.	H.G.	S.X.
0.21	15.8	0.88	At4g19490	827690	protein binding	Putative homolog of yeast Vps54. Thought to associate with POK and ATVPS53 in a plant GARP-like complex involved in the membrane trafficking system.	O.I.	H.G.	S.X.
0.20	14.4	0.89	At2g23140	816846	binding / ubiquitin-protein ligase	F:ubiquitin-protein ligase activity, binding;P:protein ubiquitination;C:ubiquitin ligase complex;OPMFBVA	O.I.	H.G.	S.X.
0.20	14.4	0.90	At1g74860	843825	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOPFBV	O.I.	H.G.	S.X.
0.17	10.2	0.87	At5g47400	834787	unknown protein	F:molecular_function unknown;P:unknown;C:endomembrane system;MPO	O.I.	H.G.	S.X.
0.17	10.2	0.88	At5g64390	836560	HEN4 (HUA ENHANCER 4)	encodes a K homology (KH) domain-containing, putative RNA binding protein that interacts with HUA1, a CCCH zinc finger RNA binding protein in the nucleus. HEN4 acts redundantly with HUA1 and HUA2 in the specification of floral organ identity in the third whorl.	O.I.	H.G.	S.X.
0.17	10.2	0.89	At1g51390	841563	NFU5	Encodes a protein containing the NFU domain that may be involved in iron-sulfur cluster assembly. Part of a five member gene family, more closely related to NFU4 than to NFU1,2, and 3. Targeted to the mitochondrion.	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
104.9 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
74.5 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
73.2 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
68.8 99.9 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
68.3 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
59.3 99.8 GSM133765 Lindsey_1-17_torpedo-cotyledon_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
58.1 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
53.6 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
53.4 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.1 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.0 99.8 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
50.7 99.8 GSM284389 Arabidopsis GMPE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
50.4 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.0 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.4 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
48.2 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.0 99.8 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
45.7 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
45.1 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.7 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.4 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.7 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.2 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
39.1 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.6 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
37.3 99.7 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
35.9 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.1 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.2 99.7 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.2 99.6 GSM184894 Arabidopsis, root cells, columella root cap, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
25.1 99.6 GSM266668 Arabidopsis, root cells, columella root cap, -Fe, replicate 3 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
24.3 99.6 GSM266667 Arabidopsis, root cells, columella root cap, -Fe, replicate 2 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
23.6 99.6 GSM266666 Arabidopsis, root cells, columella root cap, -Fe, replicate 1 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
18.7 99.5 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
18.5 99.5 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.2 99.5 GSM67087 Arabidopsis_Stigma03 GSE3056 Arabidopsis Pollination Study
17.9 99.5 GSM67086 Arabidopsis_Stigma02 GSE3056 Arabidopsis Pollination Study
15.7 99.5 E-MEXP-1725-raw-cel-1669614623
13.6 99.4 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.1 99.4 E-MEXP-1725-raw-cel-1669614634
12.2 99.3 GSM184912 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
11.2 99.2 GSM67084 Arabidopsis_Stigma01 GSE3056 Arabidopsis Pollination Study
11.1 99.2 GSM67078 Arabidopsis_Ovary01 GSE3056 Arabidopsis Pollination Study
11.1 99.2 GSM131303 AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1 GSE5622 AtGenExpress: Stress Treatments (Osmotic stress)
10.7 99.2 GSM67080 Arabidopsis_Ovary03 GSE3056 Arabidopsis Pollination Study
10.5 99.2 GSM133759 Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.1 99.2 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
10.1 99.2 GSM67081 Arabidopsis_Ovary04 GSE3056 Arabidopsis Pollination Study
9.7 99.1 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
9.5 99.1 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
9.4 99.1 GSM133304 RIKEN-NAKABAYASHI1B GSE5700 AtGenExpress: Effect of ABA during seed imbibition
9.1 99.1 GSM133117 RIKEN-YAMAUCHI1A GSE5687 AtGenExpress: Different temperature treatment of seeds
9.1 99.1 E-MEXP-1725-raw-cel-1669614562
9.1 99.1 GSM184893 Arabidopsis, root cells, columella root cap, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
9.1 99.1 E-MEXP-1725-raw-cel-1669614582
8.9 99.0 GSM284388 Arabidopsis GMPE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.8 99.0 GSM184892 Arabidopsis, root cells, columella root cap, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
8.7 99.0 GSM131706 ATGE_84_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
8.7 99.0 E-ATMX-35-raw-cel-1574334880

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
104.9	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
74.5	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
73.2	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
68.8	99.9	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
68.3	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
59.3	99.8	GSM133765	Lindsey_1-17_torpedo-cotyledon_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
58.1	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
53.6	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
53.4	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.1	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.0	99.8	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
50.7	99.8	GSM284389	Arabidopsis GMPE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
50.4	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.0	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.4	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
48.2	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.0	99.8	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
45.7	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
45.1	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.7	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.4	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.7	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.2	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
39.1	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
37.6	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
37.3	99.7	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
35.9	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.1	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.2	99.7	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
25.2	99.6	GSM184894	Arabidopsis, root cells, columella root cap, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
25.1	99.6	GSM266668	Arabidopsis, root cells, columella root cap, -Fe, replicate 3	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
24.3	99.6	GSM266667	Arabidopsis, root cells, columella root cap, -Fe, replicate 2	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
23.6	99.6	GSM266666	Arabidopsis, root cells, columella root cap, -Fe, replicate 1	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
18.7	99.5	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
18.5	99.5	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.2	99.5	GSM67087	Arabidopsis_Stigma03	GSE3056	Arabidopsis Pollination Study
17.9	99.5	GSM67086	Arabidopsis_Stigma02	GSE3056	Arabidopsis Pollination Study
15.7	99.5	E-MEXP-1725-raw-cel-1669614623
13.6	99.4	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
13.1	99.4	E-MEXP-1725-raw-cel-1669614634
12.2	99.3	GSM184912	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
11.2	99.2	GSM67084	Arabidopsis_Stigma01	GSE3056	Arabidopsis Pollination Study
11.1	99.2	GSM67078	Arabidopsis_Ovary01	GSE3056	Arabidopsis Pollination Study
11.1	99.2	GSM131303	AtGen_6-2611_Osmoticstress-Shoots-24.0h_Rep1	GSE5622	AtGenExpress: Stress Treatments (Osmotic stress)
10.7	99.2	GSM67080	Arabidopsis_Ovary03	GSE3056	Arabidopsis Pollination Study
10.5	99.2	GSM133759	Lindsey_1-9_heart-stage-cotyledon_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.1	99.2	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
10.1	99.2	GSM67081	Arabidopsis_Ovary04	GSE3056	Arabidopsis Pollination Study
9.7	99.1	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
9.5	99.1	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
9.4	99.1	GSM133304	RIKEN-NAKABAYASHI1B	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
9.1	99.1	GSM133117	RIKEN-YAMAUCHI1A	GSE5687	AtGenExpress: Different temperature treatment of seeds
9.1	99.1	E-MEXP-1725-raw-cel-1669614562
9.1	99.1	GSM184893	Arabidopsis, root cells, columella root cap, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
9.1	99.1	E-MEXP-1725-raw-cel-1669614582
8.9	99.0	GSM284388	Arabidopsis GMPE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.8	99.0	GSM184892	Arabidopsis, root cells, columella root cap, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
8.7	99.0	GSM131706	ATGE_84_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
8.7	99.0	E-ATMX-35-raw-cel-1574334880

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.057 2 GO:0009910 Any process that stops, prevents or reduces the frequency, rate or extent of flower development.
0.056 1 GO:0007004 The maintenance of proper telomeric length by the addition of telomeric repeats by telomerase.
0.056 1 GO:0032204 Any process that modulates the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA.

SF	Genes	GO ID	Process Name
0.057	2	GO:0009910	Any process that stops, prevents or reduces the frequency, rate or extent of flower development.
0.056	1	GO:0007004	The maintenance of proper telomeric length by the addition of telomeric repeats by telomerase.
0.056	1	GO:0032204	Any process that modulates the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA.

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	At4g00840
Gene name	zinc ion binding
Module size	34 genes
NF	0.32
%ile	40.8

Co-expression analysis

Gene ID At4g00840 Gene name zinc ion binding Module size 34 genes NF 0.32 %ile 40.8

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 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 At4g00840

Gene name zinc ion binding

Module size 34 genes

NF 0.32

%ile 40.8

: 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

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