CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID PtpAffx.135342.1.S1_at

Gene name hypothetical protein
Homology with Arabidopsis Similar to At2g03270: DNA-binding protein, putative (HF=2e-40)

Module size 6 genes

NF 0.36

%ile 62.9

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. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.83 97.0 0.96 PtpAffx.135342.1.S1_at CN550200 hypothetical protein - 2e-40 At2g03270 DNA-binding protein, putative O.I. H.G. S.X.
0.50 78.6 0.97 Ptp.4893.1.S1_s_at CV256447 hypothetical protein - 1e-13 At1g66680 AR401 O.I. H.G. S.X.
0.43 69.7 0.97 PtpAffx.10892.2.S1_a_at CN520703 hypothetical protein - 3e-48 At3g21640 TWD1 (TWISTED DWARF 1) O.I. H.G. S.X.
0.35 59.7 0.97 PtpAffx.53470.1.S1_at BU879364 hypothetical protein - 6e-56 At1g12050 fumarylacetoacetase, putative O.I. H.G. S.X.
0.24 41.8 0.96 Ptp.4562.1.S1_s_at CV261348 hypothetical protein - 1e-20 At5g65940 CHY1 (BETA-HYDROXYISOBUTYRYL-COA HYDROLASE 1) O.I. H.G. S.X.
0.23 40.5 0.96 PtpAffx.201300.1.S1_s_at pmrna2582 hypothetical protein - 1e-34 At3g13224 RNA recognition motif (RRM)-containing protein O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.83	97.0	0.96	PtpAffx.135342.1.S1_at	CN550200	hypothetical protein	-	2e-40	At2g03270	DNA-binding protein, putative	O.I.	H.G.	S.X.
0.50	78.6	0.97	Ptp.4893.1.S1_s_at	CV256447	hypothetical protein	-	1e-13	At1g66680	AR401	O.I.	H.G.	S.X.
0.43	69.7	0.97	PtpAffx.10892.2.S1_a_at	CN520703	hypothetical protein	-	3e-48	At3g21640	TWD1 (TWISTED DWARF 1)	O.I.	H.G.	S.X.
0.35	59.7	0.97	PtpAffx.53470.1.S1_at	BU879364	hypothetical protein	-	6e-56	At1g12050	fumarylacetoacetase, putative	O.I.	H.G.	S.X.
0.24	41.8	0.96	Ptp.4562.1.S1_s_at	CV261348	hypothetical protein	-	1e-20	At5g65940	CHY1 (BETA-HYDROXYISOBUTYRYL-COA HYDROLASE 1)	O.I.	H.G.	S.X.
0.23	40.5	0.96	PtpAffx.201300.1.S1_s_at	pmrna2582	hypothetical protein	-	1e-34	At3g13224	RNA recognition motif (RRM)-containing protein	O.I.	H.G.	S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
5.9 97.4 GSM327411 Populus balsamifera_1006_differentiating_xylem_midday_1 GSE13990 Populus balsamifera developmental tissue series
5.1 96.8 GSM327413 Populus balsamifera_1006_differentiating_xylem_midday_3 GSE13990 Populus balsamifera developmental tissue series
5.0 96.6 GSM327412 Populus balsamifera_1006_differentiating_xylem_midday_2 GSE13990 Populus balsamifera developmental tissue series
3.1 93.2 GSM328275 Populus x canescens leaf hypoxia_rep_03 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.7 91.8 GSM328274 Populus x canescens leaf hypoxia_rep_02 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.5 90.9 GSM328077 Populus x canescens leaf control_rep_06 GSE13109 Effect of hypoxia on gene expression in Grey poplar
2.1 88.6 GSM328070 Populus x canescens leaf control_rep_05 GSE13109 Effect of hypoxia on gene expression in Grey poplar
1.9 87.2 GSM328059 Populus x canescens leaf control_rep_01 GSE13109 Effect of hypoxia on gene expression in Grey poplar
1.7 85.5 GSM372100 Clone3200_LPI5_N+_8w_rep2 GSE14893 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 3200
1.6 84.5 GSM372042 Clone1979_LPI5_N-_8w_rep1 GSE14515 Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
5.9	97.4	GSM327411	Populus balsamifera_1006_differentiating_xylem_midday_1	GSE13990	Populus balsamifera developmental tissue series
5.1	96.8	GSM327413	Populus balsamifera_1006_differentiating_xylem_midday_3	GSE13990	Populus balsamifera developmental tissue series
5.0	96.6	GSM327412	Populus balsamifera_1006_differentiating_xylem_midday_2	GSE13990	Populus balsamifera developmental tissue series
3.1	93.2	GSM328275	Populus x canescens leaf hypoxia_rep_03	GSE13109	Effect of hypoxia on gene expression in Grey poplar
2.7	91.8	GSM328274	Populus x canescens leaf hypoxia_rep_02	GSE13109	Effect of hypoxia on gene expression in Grey poplar
2.5	90.9	GSM328077	Populus x canescens leaf control_rep_06	GSE13109	Effect of hypoxia on gene expression in Grey poplar
2.1	88.6	GSM328070	Populus x canescens leaf control_rep_05	GSE13109	Effect of hypoxia on gene expression in Grey poplar
1.9	87.2	GSM328059	Populus x canescens leaf control_rep_01	GSE13109	Effect of hypoxia on gene expression in Grey poplar
1.7	85.5	GSM372100	Clone3200_LPI5_N+_8w_rep2	GSE14893	Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 3200
1.6	84.5	GSM372042	Clone1979_LPI5_N-_8w_rep1	GSE14515	Comparative transcriptomics analysis of Populus leaves under nitrogen limitation: clone 1979

Inter-species module comparison

A co-expression module including the Arabidopsis gene, At2g03270, orthologous to the query gene, PtpAffx.135342.1.S1_at

VF %ile Gene ID Repr. ID Gene Name Func. O.I. H.G. S.X. Other DB
0.56 73.0 At2g03270 814856 DNA-binding protein, putative F:nucleoside-triphosphatase activity, DNA binding, nucleotide binding, ATP binding;P:unknown;C:cellular_component unknown;BMOFPAV O.I. H.G. S.X.
0.73 85.5 At1g05120 839319 SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein F:in 6 functions;P:unknown;C:unknown;MFBOPVA O.I. H.G. S.X.
0.71 84.2 At5g65000 836624 nucleotide-sugar transporter family protein F:nucleotide-sugar transmembrane transporter activity, sugar:hydrogen symporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:integral to membrane, Golgi membrane;MPOFAB O.I. H.G. S.X.
0.68 82.2 At5g49220 834982 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO O.I. H.G. S.X.
0.68 82.2 At1g07210 837232 30S ribosomal protein S18 family F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOPMF O.I. H.G. S.X.
0.67 81.6 At3g01320 821265 SNL1 (SIN3-LIKE 1) Encodes SIN3-like 1, a homolog of the transcriptional repressor SIN3 (AT1G24190). O.I. H.G. S.X.
0.65 79.6 At5g58510 835964 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOB O.I. H.G. S.X.
0.62 77.3 At1g71350 843476 eukaryotic translation initiation factor SUI1 family protein F:RNA binding, translation initiation factor activity;P:translational initiation;C:unknown;MFOPA O.I. H.G. S.X.
0.62 77.3 At5g55300 835623 TOP1ALPHA (DNA TOPOISOMERASE I ALPHA) Encodes a type-I DNA topoisomerase I. Disruptions in this gene affect phyllotaxis and plant architecture suggesting that the gene plays a critical role in the maintenance of a regular pattern of organ initiation. Isolated as a protein oxidized during seed germination; proteomics approach revealed differences in de novo synthesis levels of this protein in condition with vs. without salicylic acid in the period from 0 to 40 hrs. following seed imbibition. O.I. H.G. S.X.
0.61 76.7 At2g30320 817582 tRNA pseudouridine synthase family protein F:pseudouridine synthase activity;P:tRNA processing, pseudouridine synthesis;C:unknown;OBMFPA O.I. H.G. S.X.
0.60 75.7 At1g47570 841166 zinc finger (C3HC4-type RING finger) family protein F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV O.I. H.G. S.X.
0.60 75.7 At3g03110 821074 XPO1B Encodes a member of the exportin family (XPO1B)which function as receptors for nuclear transport.Along with XPO1A involved in the development of male and female gametophytes. O.I. H.G. S.X.
0.58 73.8 At2g39760 818561 BPM3 F:protein binding;P:biological_process unknown;C:unknown;MPOFV O.I. H.G. S.X.
0.57 73.8 At2g28320 817379 pleckstrin homology (PH) domain-containing protein / lipid-binding START domain-containing protein F:phosphoinositide binding;P:signal transduction;C:plasma membrane;PMO O.I. H.G. S.X.
0.56 73.0 At3g17770 821045 dihydroxyacetone kinase family protein F:glycerone kinase activity, ATP binding;P:glycerol metabolic process;C:cellular_component unknown;BOFMPA O.I. H.G. S.X.
0.55 70.6 At1g47490 841157 ATRBP47C (ARABIDOPSIS THALIANA RNA-BINDING PROTEIN 47C) F:RNA binding;P:unknown;C:unknown;MPFOBVA O.I. H.G. S.X.
0.53 68.6 At3g20770 821625 EIN3 (ETHYLENE-INSENSITIVE3) ethylene-insensitive3 O.I. H.G. S.X.
0.52 67.4 At2g44660 819074 transferase, transferring glycosyl groups / transferase, transferring hexosyl groups F:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:biological_process unknown;C:endomembrane system, endoplasmic reticulum membrane;MFOPB O.I. H.G. S.X.
0.52 67.4 At3g12530 820432 PSF2 F:molecular_function unknown;P:DNA replication;C:nucleus;MFOP O.I. H.G. S.X.
0.52 67.4 At5g02910 831746 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO O.I. H.G. S.X.
0.52 67.4 At1g05380 837039 DNA binding F:DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPOFAB O.I. H.G. S.X.
0.52 67.4 At3g03970 819552 binding F:binding;P:spliceosome assembly, nuclear mRNA splicing, via spliceosome;C:cellular_component unknown;P O.I. H.G. S.X.
0.52 67.4 At5g01450 831860 protein binding / zinc ion binding F:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPVF O.I. H.G. S.X.
0.50 65.3 At3g24740 822072 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.50 65.3 At5g49610 835023 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.47 61.2 At5g41880 834193 POLA3 F:DNA primase activity;P:DNA replication, synthesis of RNA primer, DNA replication;C:unknown;MFOAP O.I. H.G. S.X.
0.47 61.2 At1g04230 839575 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBV O.I. H.G. S.X.
0.46 59.8 At5g16800 831543 GCN5-related N-acetyltransferase (GNAT) family protein F:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;MOBPAFV O.I. H.G. S.X.
0.43 55.3 At3g24200 822006 FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen F:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPA O.I. H.G. S.X.
0.43 55.3 At5g66010 836731 RNA binding / nucleic acid binding / nucleotide binding F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPF O.I. H.G. S.X.
0.40 50.8 At1g71800 843510 cleavage stimulation factor, putative F:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA O.I. H.G. S.X.
0.39 48.4 At5g53150 835396 heat shock protein binding / unfolded protein binding F:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFAV O.I. H.G. S.X.
0.38 46.7 At2g34690 818034 ACD11 (ACCELERATED CELL DEATH 11) Gene product transports the glycolipid precursor sphingosine between membranes in vitro. Mutant constitutively expresses defense-related genes that accompany the hypersensitive response normally triggered by avirulent pathogens. O.I. H.G. S.X.

VF	%ile	Gene ID	Repr. ID	Gene Name	Func.	O.I.	H.G.	S.X.
0.56	73.0	At2g03270	814856	DNA-binding protein, putative	F:nucleoside-triphosphatase activity, DNA binding, nucleotide binding, ATP binding;P:unknown;C:cellular_component unknown;BMOFPAV	O.I.	H.G.	S.X.
0.73	85.5	At1g05120	839319	SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein	F:in 6 functions;P:unknown;C:unknown;MFBOPVA	O.I.	H.G.	S.X.
0.71	84.2	At5g65000	836624	nucleotide-sugar transporter family protein	F:nucleotide-sugar transmembrane transporter activity, sugar:hydrogen symporter activity;P:carbohydrate transport, nucleotide-sugar transport;C:integral to membrane, Golgi membrane;MPOFAB	O.I.	H.G.	S.X.
0.68	82.2	At5g49220	834982	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PO	O.I.	H.G.	S.X.
0.68	82.2	At1g07210	837232	30S ribosomal protein S18 family	F:structural constituent of ribosome;P:translation;C:ribosome, intracellular;BOPMF	O.I.	H.G.	S.X.
0.67	81.6	At3g01320	821265	SNL1 (SIN3-LIKE 1)	Encodes SIN3-like 1, a homolog of the transcriptional repressor SIN3 (AT1G24190).	O.I.	H.G.	S.X.
0.65	79.6	At5g58510	835964	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;MPOB	O.I.	H.G.	S.X.
0.62	77.3	At1g71350	843476	eukaryotic translation initiation factor SUI1 family protein	F:RNA binding, translation initiation factor activity;P:translational initiation;C:unknown;MFOPA	O.I.	H.G.	S.X.
0.62	77.3	At5g55300	835623	TOP1ALPHA (DNA TOPOISOMERASE I ALPHA)	Encodes a type-I DNA topoisomerase I. Disruptions in this gene affect phyllotaxis and plant architecture suggesting that the gene plays a critical role in the maintenance of a regular pattern of organ initiation. Isolated as a protein oxidized during seed germination; proteomics approach revealed differences in de novo synthesis levels of this protein in condition with vs. without salicylic acid in the period from 0 to 40 hrs. following seed imbibition.	O.I.	H.G.	S.X.
0.61	76.7	At2g30320	817582	tRNA pseudouridine synthase family protein	F:pseudouridine synthase activity;P:tRNA processing, pseudouridine synthesis;C:unknown;OBMFPA	O.I.	H.G.	S.X.
0.60	75.7	At1g47570	841166	zinc finger (C3HC4-type RING finger) family protein	F:protein binding, zinc ion binding;P:unknown;C:unknown;MOFPV	O.I.	H.G.	S.X.
0.60	75.7	At3g03110	821074	XPO1B	Encodes a member of the exportin family (XPO1B)which function as receptors for nuclear transport.Along with XPO1A involved in the development of male and female gametophytes.	O.I.	H.G.	S.X.
0.58	73.8	At2g39760	818561	BPM3	F:protein binding;P:biological_process unknown;C:unknown;MPOFV	O.I.	H.G.	S.X.
0.57	73.8	At2g28320	817379	pleckstrin homology (PH) domain-containing protein / lipid-binding START domain-containing protein	F:phosphoinositide binding;P:signal transduction;C:plasma membrane;PMO	O.I.	H.G.	S.X.
0.56	73.0	At3g17770	821045	dihydroxyacetone kinase family protein	F:glycerone kinase activity, ATP binding;P:glycerol metabolic process;C:cellular_component unknown;BOFMPA	O.I.	H.G.	S.X.
0.55	70.6	At1g47490	841157	ATRBP47C (ARABIDOPSIS THALIANA RNA-BINDING PROTEIN 47C)	F:RNA binding;P:unknown;C:unknown;MPFOBVA	O.I.	H.G.	S.X.
0.53	68.6	At3g20770	821625	EIN3 (ETHYLENE-INSENSITIVE3)	ethylene-insensitive3	O.I.	H.G.	S.X.
0.52	67.4	At2g44660	819074	transferase, transferring glycosyl groups / transferase, transferring hexosyl groups	F:transferase activity, transferring hexosyl groups, transferase activity, transferring glycosyl groups;P:biological_process unknown;C:endomembrane system, endoplasmic reticulum membrane;MFOPB	O.I.	H.G.	S.X.
0.52	67.4	At3g12530	820432	PSF2	F:molecular_function unknown;P:DNA replication;C:nucleus;MFOP	O.I.	H.G.	S.X.
0.52	67.4	At5g02910	831746	F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBO	O.I.	H.G.	S.X.
0.52	67.4	At1g05380	837039	DNA binding	F:DNA binding;P:regulation of transcription, DNA-dependent;C:nucleus;MPOFAB	O.I.	H.G.	S.X.
0.52	67.4	At3g03970	819552	binding	F:binding;P:spliceosome assembly, nuclear mRNA splicing, via spliceosome;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.52	67.4	At5g01450	831860	protein binding / zinc ion binding	F:protein binding, zinc ion binding;P:biological_process unknown;C:cellular_component unknown;MOPVF	O.I.	H.G.	S.X.
0.50	65.3	At3g24740	822072	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.50	65.3	At5g49610	835023	F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PMO	O.I.	H.G.	S.X.
0.47	61.2	At5g41880	834193	POLA3	F:DNA primase activity;P:DNA replication, synthesis of RNA primer, DNA replication;C:unknown;MFOAP	O.I.	H.G.	S.X.
0.47	61.2	At1g04230	839575	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPBV	O.I.	H.G.	S.X.
0.46	59.8	At5g16800	831543	GCN5-related N-acetyltransferase (GNAT) family protein	F:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;MOBPAFV	O.I.	H.G.	S.X.
0.43	55.3	At3g24200	822006	FAD binding / monooxygenase/ oxidoreductase/ oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen	F:oxidoreductase activity, monooxygenase activity, FAD binding, oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen;P:ubiquinone biosynthetic process, metabolic process;C:unknown;BOFMPA	O.I.	H.G.	S.X.
0.43	55.3	At5g66010	836731	RNA binding / nucleic acid binding / nucleotide binding	F:RNA binding, nucleotide binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MOPF	O.I.	H.G.	S.X.
0.40	50.8	At1g71800	843510	cleavage stimulation factor, putative	F:protein binding, RNA binding;P:biological_process unknown;C:cellular_component unknown;MPFOBA	O.I.	H.G.	S.X.
0.39	48.4	At5g53150	835396	heat shock protein binding / unfolded protein binding	F:unfolded protein binding, heat shock protein binding;P:protein folding;C:cellular_component unknown;BOMPFAV	O.I.	H.G.	S.X.
0.38	46.7	At2g34690	818034	ACD11 (ACCELERATED CELL DEATH 11)	Gene product transports the glycolipid precursor sphingosine between membranes in vitro. Mutant constitutively expresses defense-related genes that accompany the hypersensitive response normally triggered by avirulent pathogens.	O.I.	H.G.	S.X.

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

Back to the CoP portal site

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Gene ID	PtpAffx.135342.1.S1_at
Gene name	hypothetical protein
Homology with Arabidopsis	Similar to At2g03270: DNA-binding protein, putative (HF=2e-40)
Module size	6 genes
NF	0.36
%ile	62.9

Co-expression analysis

Gene ID PtpAffx.135342.1.S1_at Gene name hypothetical protein Homology with ArabidopsisSimilar to At2g03270: DNA-binding protein, putative (HF=2e-40) Module size 6 genes NF 0.36 %ile 62.9

Co-expressed genes

Click More genes

Specific experiments for the module

Inter-species module comparison

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

Gene ID PtpAffx.135342.1.S1_at

Gene name hypothetical protein
Homology with Arabidopsis Similar to At2g03270: DNA-binding protein, putative (HF=2e-40)

Module size 6 genes

NF 0.36

%ile 62.9

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