CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os04g0293300

Gene name
Homology with Arabidopsis Similar to At4g08593: unknown protein (HF=3e-1)

Module size 34 genes

NF 0.42

%ile 51.8

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
0.96 99.7 0.79 Os04g0293300 AK111082.1 - Tropinone reductase-I (EC 1.1.1.206) (TR-I)(Tropine dehydrogenase) 3e-1 At4g08593 unknown protein O.I. H.G. S.X.
0.57 77.0 0.87 Os03g0748300 AK068519.1 - Galactose mutarotase-like domain containingprotein 5e-2 At3g15780 unknown protein O.I. H.G. S.X.
0.57 77.0 0.87 Os08g0425200 AK099569.1 - Conserved hypothetical protein 1e-1 At4g11870 unknown protein O.I. H.G. S.X.
0.56 76.3 0.86 Os01g0784700 AY327041.1 - Receptor-like kinase 2e-6 At4g21380 ARK3 (A. THALIANA RECEPTOR KINASE 3) O.I. H.G. S.X.
0.55 73.7 0.91 Os03g0856100 AK067137.1 - TPR-like domain containing protein 1e+0 At5g46730 glycine-rich protein O.I. H.G. S.X.
0.54 71.9 0.87 Os07g0105600 AK068377.1 - Photosystem II oxygen evolving complex proteinPsbQ family protein 1e-1 At5g56840 DNA-binding family protein O.I. H.G. S.X.
0.53 71.3 0.89 Os02g0731700 AK120314.1 - CONSTANS-like 1 protein 1e-6 At1g68520 zinc finger (B-box type) family protein O.I. H.G. S.X.
0.51 68.7 0.89 Os01g0676200 AK070436.1 - Conserved hypothetical protein 2e+0 At4g13720 inosine triphosphate pyrophosphatase, putative / HAM1 family protein O.I. H.G. S.X.
0.51 68.7 0.86 Os02g0773500 AK062694.1 - Conserved hypothetical protein 1e-3 At5g56950 NAP1 O.I. H.G. S.X.
0.51 68.7 0.92 Os01g0920300 AK067201.1 - Conserved hypothetical protein 3e-7 At3g27180 unknown protein O.I. H.G. S.X.
0.51 68.7 0.92 Os02g0751600 AK072946.1 - Peptidylprolyl isomerase, FKBP-type domaincontaining protein 4e-2 At5g03030 DNAJ heat shock N-terminal domain-containing protein O.I. H.G. S.X.
0.50 68.0 0.87 Os08g0139100 AK099590.1 - DAG protein, chloroplast precursor 7e-44 At1g11430 plastid developmental protein DAG, putative O.I. H.G. S.X.
0.50 68.0 0.81 Os02g0774100 9630.m05279 - Thioredoxin-related domain containing protein 4e-3 At5g06690 WCRKC1 (WCRKC THIOREDOXIN 1) O.I. H.G. S.X.
0.46 60.9 0.87 Os02g0533200 9630.m03134 - SOUL heme-binding protein family protein 1e-1 At5g65495 unknown protein O.I. H.G. S.X.
0.46 60.9 0.87 Os03g0644400 AB022783.1 - Amino acid permease 5e-3 At2g39890 PROT1 (PROLINE TRANSPORTER 1) O.I. H.G. S.X.
0.41 52.4 0.90 Os05g0551800 9633.m04459 - - 3e-14 At3g18390 EMB1865 (embryo defective 1865) O.I. H.G. S.X.
0.38 46.9 0.88 Os05g0318300 AK065362.1 - Uncharacterised conserved protein UCP005520 familyprotein 7e-4 At2g25460 - O.I. H.G. S.X.
0.37 45.0 0.91 Os03g0633900 AK059181.1 - Single-strand binding protein/Primosomalreplication protein n family protein 2e-7 At1g47720 OSB1 (Organellar Single-stranded) O.I. H.G. S.X.
0.36 44.0 0.86 Os02g0677600 AK068106.1 - Conserved hypothetical protein 2e+0 At5g54740 protease inhibitor/seed storage/lipid transfer protein (LTP) family protein O.I. H.G. S.X.
0.36 44.0 0.90 Os04g0514400 AK108112.1 - Peptidoglycan binding-like domain containingprotein 4e-1 At5g57070 hydroxyproline-rich glycoprotein family protein O.I. H.G. S.X.
0.35 41.7 0.88 Os08g0545700 9636.m04401 - TraB determinant family protein 6e-1 At5g52030 TraB protein-related O.I. H.G. S.X.
0.35 41.7 0.92 Os01g0618400 NM_192814.1 - RNA helicase (Fragment) 2e-20 At5g63630 DEAD box RNA helicase, putative O.I. H.G. S.X.
0.34 40.0 0.94 Os04g0601800 AK062641.1 - Plastid protein 3e-45 At2g33430 DAL1 (DIFFERENTIATION AND GREENING-LIKE 1) O.I. H.G. S.X.
0.34 40.0 0.91 Os03g0322600 AK067222.1 - Hypothetical protein 4e-2 At5g22340 unknown protein O.I. H.G. S.X.
0.33 38.8 0.92 Os03g0736400 AK105812.1 - Conserved hypothetical protein 95 family protein 1e-24 At3g28460 unknown protein O.I. H.G. S.X.
0.32 36.3 0.93 Os03g0656900 AK066416.1 - NusB/RsmB/TIM44 domain containing protein 3e-9 At4g26370 antitermination NusB domain-containing protein O.I. H.G. S.X.
0.32 36.3 0.93 Os08g0345400 AK065348.1 - Conserved hypothetical protein 1e-2 At2g04360 unknown protein O.I. H.G. S.X.
0.32 36.3 0.83 Os01g0343500 AK071988.1 - TPR repeat containing protein 9e-10 At3g05625 binding O.I. H.G. S.X.
0.30 32.7 0.89 Os12g0534100 AK071079.1 - Conserved hypothetical protein 6e+0 At5g47180 vesicle-associated membrane family protein / VAMP family protein O.I. H.G. S.X.
0.30 32.7 0.89 Os03g0284900 AK068146.1 - Protein prenyltransferase domain containingprotein 6e-3 At5g02830 pentatricopeptide (PPR) repeat-containing protein O.I. H.G. S.X.
0.29 31.1 0.90 Os03g0271100 AB095095.1 - Sigma factor SIG2B 4e-3 At1g08540 SIG2 (RNA POLYMERASE SIGMA SUBUNIT 2) O.I. H.G. S.X.
0.26 25.6 0.87 Os01g0221500 NM_188507.1 - - 6e-9 At2g46220 unknown protein O.I. H.G. S.X.
0.22 19.4 0.92 Os01g0142100 AK065031.1 - Peptidase M50 family protein 1e-6 At5g05740 EGY2 O.I. H.G. S.X.
0.18 13.7 0.93 Os01g0617900 AK109342.2 - Conserved hypothetical protein 3e-9 At5g11450 oxygen-evolving complex-related 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.
0.96	99.7	0.79	Os04g0293300	AK111082.1	-	Tropinone reductase-I (EC 1.1.1.206) (TR-I)(Tropine dehydrogenase)	3e-1	At4g08593	unknown protein	O.I.	H.G.	S.X.
0.57	77.0	0.87	Os03g0748300	AK068519.1	-	Galactose mutarotase-like domain containingprotein	5e-2	At3g15780	unknown protein	O.I.	H.G.	S.X.
0.57	77.0	0.87	Os08g0425200	AK099569.1	-	Conserved hypothetical protein	1e-1	At4g11870	unknown protein	O.I.	H.G.	S.X.
0.56	76.3	0.86	Os01g0784700	AY327041.1	-	Receptor-like kinase	2e-6	At4g21380	ARK3 (A. THALIANA RECEPTOR KINASE 3)	O.I.	H.G.	S.X.
0.55	73.7	0.91	Os03g0856100	AK067137.1	-	TPR-like domain containing protein	1e+0	At5g46730	glycine-rich protein	O.I.	H.G.	S.X.
0.54	71.9	0.87	Os07g0105600	AK068377.1	-	Photosystem II oxygen evolving complex proteinPsbQ family protein	1e-1	At5g56840	DNA-binding family protein	O.I.	H.G.	S.X.
0.53	71.3	0.89	Os02g0731700	AK120314.1	-	CONSTANS-like 1 protein	1e-6	At1g68520	zinc finger (B-box type) family protein	O.I.	H.G.	S.X.
0.51	68.7	0.89	Os01g0676200	AK070436.1	-	Conserved hypothetical protein	2e+0	At4g13720	inosine triphosphate pyrophosphatase, putative / HAM1 family protein	O.I.	H.G.	S.X.
0.51	68.7	0.86	Os02g0773500	AK062694.1	-	Conserved hypothetical protein	1e-3	At5g56950	NAP1	O.I.	H.G.	S.X.
0.51	68.7	0.92	Os01g0920300	AK067201.1	-	Conserved hypothetical protein	3e-7	At3g27180	unknown protein	O.I.	H.G.	S.X.
0.51	68.7	0.92	Os02g0751600	AK072946.1	-	Peptidylprolyl isomerase, FKBP-type domaincontaining protein	4e-2	At5g03030	DNAJ heat shock N-terminal domain-containing protein	O.I.	H.G.	S.X.
0.50	68.0	0.87	Os08g0139100	AK099590.1	-	DAG protein, chloroplast precursor	7e-44	At1g11430	plastid developmental protein DAG, putative	O.I.	H.G.	S.X.
0.50	68.0	0.81	Os02g0774100	9630.m05279	-	Thioredoxin-related domain containing protein	4e-3	At5g06690	WCRKC1 (WCRKC THIOREDOXIN 1)	O.I.	H.G.	S.X.
0.46	60.9	0.87	Os02g0533200	9630.m03134	-	SOUL heme-binding protein family protein	1e-1	At5g65495	unknown protein	O.I.	H.G.	S.X.
0.46	60.9	0.87	Os03g0644400	AB022783.1	-	Amino acid permease	5e-3	At2g39890	PROT1 (PROLINE TRANSPORTER 1)	O.I.	H.G.	S.X.
0.41	52.4	0.90	Os05g0551800	9633.m04459	-	-	3e-14	At3g18390	EMB1865 (embryo defective 1865)	O.I.	H.G.	S.X.
0.38	46.9	0.88	Os05g0318300	AK065362.1	-	Uncharacterised conserved protein UCP005520 familyprotein	7e-4	At2g25460	-	O.I.	H.G.	S.X.
0.37	45.0	0.91	Os03g0633900	AK059181.1	-	Single-strand binding protein/Primosomalreplication protein n family protein	2e-7	At1g47720	OSB1 (Organellar Single-stranded)	O.I.	H.G.	S.X.
0.36	44.0	0.86	Os02g0677600	AK068106.1	-	Conserved hypothetical protein	2e+0	At5g54740	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.36	44.0	0.90	Os04g0514400	AK108112.1	-	Peptidoglycan binding-like domain containingprotein	4e-1	At5g57070	hydroxyproline-rich glycoprotein family protein	O.I.	H.G.	S.X.
0.35	41.7	0.88	Os08g0545700	9636.m04401	-	TraB determinant family protein	6e-1	At5g52030	TraB protein-related	O.I.	H.G.	S.X.
0.35	41.7	0.92	Os01g0618400	NM_192814.1	-	RNA helicase (Fragment)	2e-20	At5g63630	DEAD box RNA helicase, putative	O.I.	H.G.	S.X.
0.34	40.0	0.94	Os04g0601800	AK062641.1	-	Plastid protein	3e-45	At2g33430	DAL1 (DIFFERENTIATION AND GREENING-LIKE 1)	O.I.	H.G.	S.X.
0.34	40.0	0.91	Os03g0322600	AK067222.1	-	Hypothetical protein	4e-2	At5g22340	unknown protein	O.I.	H.G.	S.X.
0.33	38.8	0.92	Os03g0736400	AK105812.1	-	Conserved hypothetical protein 95 family protein	1e-24	At3g28460	unknown protein	O.I.	H.G.	S.X.
0.32	36.3	0.93	Os03g0656900	AK066416.1	-	NusB/RsmB/TIM44 domain containing protein	3e-9	At4g26370	antitermination NusB domain-containing protein	O.I.	H.G.	S.X.
0.32	36.3	0.93	Os08g0345400	AK065348.1	-	Conserved hypothetical protein	1e-2	At2g04360	unknown protein	O.I.	H.G.	S.X.
0.32	36.3	0.83	Os01g0343500	AK071988.1	-	TPR repeat containing protein	9e-10	At3g05625	binding	O.I.	H.G.	S.X.
0.30	32.7	0.89	Os12g0534100	AK071079.1	-	Conserved hypothetical protein	6e+0	At5g47180	vesicle-associated membrane family protein / VAMP family protein	O.I.	H.G.	S.X.
0.30	32.7	0.89	Os03g0284900	AK068146.1	-	Protein prenyltransferase domain containingprotein	6e-3	At5g02830	pentatricopeptide (PPR) repeat-containing protein	O.I.	H.G.	S.X.
0.29	31.1	0.90	Os03g0271100	AB095095.1	-	Sigma factor SIG2B	4e-3	At1g08540	SIG2 (RNA POLYMERASE SIGMA SUBUNIT 2)	O.I.	H.G.	S.X.
0.26	25.6	0.87	Os01g0221500	NM_188507.1	-	-	6e-9	At2g46220	unknown protein	O.I.	H.G.	S.X.
0.22	19.4	0.92	Os01g0142100	AK065031.1	-	Peptidase M50 family protein	1e-6	At5g05740	EGY2	O.I.	H.G.	S.X.
0.18	13.7	0.93	Os01g0617900	AK109342.2	-	Conserved hypothetical protein	3e-9	At5g11450	oxygen-evolving complex-related	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
12.5 98.3 GSM422674 Musa_DNA_RICE GSE16865 Heterologous microarrays for the study of drought stress in Musa
10.9 98.1 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.8 98.0 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
9.7 98.0 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.4 97.9 GSM377078 Genomic DNA - 45 day old leaf sample - mutant g6603 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.3 97.9 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8 97.8 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8 97.8 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.7 97.8 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.7 97.8 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
12.5	98.3	GSM422674	Musa_DNA_RICE	GSE16865	Heterologous microarrays for the study of drought stress in Musa
10.9	98.1	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.8	98.0	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
9.7	98.0	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.4	97.9	GSM377078	Genomic DNA - 45 day old leaf sample - mutant g6603	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.3	97.9	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8	97.8	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8	97.8	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.7	97.8	GSM377077	Genomic DNA - 45 day old leaf sample - mutant g6489	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.7	97.8	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.045 1 GO:0006352 Any process involved in the assembly of the RNA polymerase complex at the promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter.
0.044 1 GO:0006298 A system for the correction of errors in which an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination.
0.043 1 GO:0006012 The chemical reactions and pathways involving galactose, the aldohexose galacto-hexose. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose.

SF	Genes	GO ID	Process Name
0.045	1	GO:0006352	Any process involved in the assembly of the RNA polymerase complex at the promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter.
0.044	1	GO:0006298	A system for the correction of errors in which an incorrect base, which cannot form hydrogen bonds with the corresponding base in the parent strand, is incorporated into the daughter strand. The mismatch repair system promotes genomic fidelity by repairing base-base mismatches, insertion-deletion loops and heterologies generated during DNA replication and recombination.
0.043	1	GO:0006012	The chemical reactions and pathways involving galactose, the aldohexose galacto-hexose. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose.

Inter-species module comparison

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

Back to the CoP portal site

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Gene ID	Os04g0293300
Gene name
Homology with Arabidopsis	Similar to At4g08593: unknown protein (HF=3e-1)
Module size	34 genes
NF	0.42
%ile	51.8

Co-expression analysis

Gene ID Os04g0293300 Gene name Homology with ArabidopsisSimilar to At4g08593: unknown protein (HF=3e-1) Module size 34 genes NF 0.42 %ile 51.8

Co-expressed genes

Click More genes

Specific experiments for the module

Biological processes inferred to relate to the module

Inter-species module comparison

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

Gene ID Os04g0293300

Gene name
Homology with Arabidopsis Similar to At4g08593: unknown protein (HF=3e-1)

Module size 34 genes

NF 0.42

%ile 51.8

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