CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os03g0267300

Gene name
Homology with Arabidopsis Similar to At3g54050: fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative (HF=1e-24)

Module size 21 genes

NF 0.45

%ile 57.5

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 95.8 0.94 Os03g0267300 AK062233.1 - Fructose-1,6-bisphosphatase, chloroplast precursor(EC 3.1.3.11) (D- fructose-1,6-bisphosphate1-phosphohydrolase) (FBPase) 1e-24 At3g54050 fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative O.I. H.G. S.X.
0.60 79.7 0.95 Os08g0521800 AK067267.1 - Conserved hypothetical protein 2e+0 At5g45740 unknown protein O.I. H.G. S.X.
0.58 77.0 0.95 Os02g0122500 BQ908554 - Conserved hypothetical protein 9e-1 At1g55546 unknown protein O.I. H.G. S.X.
0.57 77.0 0.95 Os02g0638300 AK107831.1 - Ferredoxin-thioredoxin reductase, variable chain(FTR-V) (Ferredoxin- thioredoxin reductase subunit A)(FTR-A) 4e-1 At4g15510 photosystem II reaction center PsbP family protein O.I. H.G. S.X.
0.53 71.3 0.95 Os08g0379400 AK112013.1 - Quinone oxidoreductase-like protein 8e-4 At1g23740 oxidoreductase, zinc-binding dehydrogenase family protein O.I. H.G. S.X.
0.53 71.3 0.94 Os02g0729400 AY476807.1 - Rhodanese-like domain containing protein 3e+0 At5g20570 RBX1 (RING-BOX 1) O.I. H.G. S.X.
0.51 68.7 0.96 Os07g0176900 AK060861.1 - Ribose-5-phosphate isomerase precursor (EC5.3.1.6) 4e-5 At2g01290 ribose-5-phosphate isomerase O.I. H.G. S.X.
0.51 68.7 0.95 Os04g0639300 AK058483.1 - Conserved hypothetical protein 2e-5 At2g21960 unknown protein O.I. H.G. S.X.
0.50 68.0 0.96 Os03g0311300 AK073167.1 - The start codon is not identified. 1e-27 At1g56500 haloacid dehalogenase-like hydrolase family protein O.I. H.G. S.X.
0.47 62.3 0.95 Os08g0359000 AK066474.1 - Conserved hypothetical protein 2e-4 At5g38660 APE1 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT) O.I. H.G. S.X.
0.43 55.4 0.96 Os04g0490800 AK066522.1 - 4-nitrophenylphosphatase-like protein 1e-28 At5g36700 PGLP1 (2-PHOSPHOGLYCOLATE PHOSPHATASE 1) O.I. H.G. S.X.
0.39 48.3 0.96 Os03g0278900 AK105925.1 - H+-transporting ATP synthase chain 9-like protein 3e-8 At4g32260 ATP synthase family O.I. H.G. S.X.
0.38 46.9 0.96 Os07g0152900 AK062433.1 - - 2e-11 At3g14420 (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative O.I. H.G. S.X.
0.38 46.9 0.96 Os04g0459500 AK071685.1 - GADPH (383 AA) (Fragment) 6e-11 At1g12900 GAPA-2 (GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE A SUBUNIT 2) O.I. H.G. S.X.
0.38 46.9 0.95 Os04g0445200 AK062427.1 - Predicted enzyme of the cupin superfamily 1e+0 At5g42635 glycine-rich protein O.I. H.G. S.X.
0.38 46.9 0.94 Os07g0171100 AK066475.1 - TPR-like domain containing protein 2e-16 At1g55480 binding / protein binding O.I. H.G. S.X.
0.38 46.9 0.96 Os09g0249900 AK099860.1 - Ferredoxin-thioredoxin reductase (Fragment) 2e-18 At2g04700 ferredoxin thioredoxin reductase catalytic beta chain family protein O.I. H.G. S.X.
0.36 44.0 0.96 Os06g0608700 AK064989.1 - Fructose-bisphosphate aldolase, class-I familyprotein 1e-36 At4g26530 fructose-bisphosphate aldolase, putative O.I. H.G. S.X.
0.34 40.0 0.95 Os01g0912700 AK068528.1 - Conserved hypothetical protein 1e-1 At2g01340 unknown protein O.I. H.G. S.X.
0.30 32.7 0.98 Os03g0129300 CB644543 - Glyceraldehyde-3-phosphate dehydrogenase (EC1.2.1.13) (Fragment) 2e-29 At1g42970 GAPB (GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE B SUBUNIT) O.I. H.G. S.X.
0.29 31.1 0.95 Os03g0773800 AK104821.1 - Malate dehydrogenase, glyoxysomal precursor (EC1.1.1.37) (mbNAD-MDH) 2e-38 At5g09660 PMDH2 (peroxisomal NAD-malate dehydrogenase 2) 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	95.8	0.94	Os03g0267300	AK062233.1	-	Fructose-1,6-bisphosphatase, chloroplast precursor(EC 3.1.3.11) (D- fructose-1,6-bisphosphate1-phosphohydrolase) (FBPase)	1e-24	At3g54050	fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative	O.I.	H.G.	S.X.
0.60	79.7	0.95	Os08g0521800	AK067267.1	-	Conserved hypothetical protein	2e+0	At5g45740	unknown protein	O.I.	H.G.	S.X.
0.58	77.0	0.95	Os02g0122500	BQ908554	-	Conserved hypothetical protein	9e-1	At1g55546	unknown protein	O.I.	H.G.	S.X.
0.57	77.0	0.95	Os02g0638300	AK107831.1	-	Ferredoxin-thioredoxin reductase, variable chain(FTR-V) (Ferredoxin- thioredoxin reductase subunit A)(FTR-A)	4e-1	At4g15510	photosystem II reaction center PsbP family protein	O.I.	H.G.	S.X.
0.53	71.3	0.95	Os08g0379400	AK112013.1	-	Quinone oxidoreductase-like protein	8e-4	At1g23740	oxidoreductase, zinc-binding dehydrogenase family protein	O.I.	H.G.	S.X.
0.53	71.3	0.94	Os02g0729400	AY476807.1	-	Rhodanese-like domain containing protein	3e+0	At5g20570	RBX1 (RING-BOX 1)	O.I.	H.G.	S.X.
0.51	68.7	0.96	Os07g0176900	AK060861.1	-	Ribose-5-phosphate isomerase precursor (EC5.3.1.6)	4e-5	At2g01290	ribose-5-phosphate isomerase	O.I.	H.G.	S.X.
0.51	68.7	0.95	Os04g0639300	AK058483.1	-	Conserved hypothetical protein	2e-5	At2g21960	unknown protein	O.I.	H.G.	S.X.
0.50	68.0	0.96	Os03g0311300	AK073167.1	-	The start codon is not identified.	1e-27	At1g56500	haloacid dehalogenase-like hydrolase family protein	O.I.	H.G.	S.X.
0.47	62.3	0.95	Os08g0359000	AK066474.1	-	Conserved hypothetical protein	2e-4	At5g38660	APE1 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT)	O.I.	H.G.	S.X.
0.43	55.4	0.96	Os04g0490800	AK066522.1	-	4-nitrophenylphosphatase-like protein	1e-28	At5g36700	PGLP1 (2-PHOSPHOGLYCOLATE PHOSPHATASE 1)	O.I.	H.G.	S.X.
0.39	48.3	0.96	Os03g0278900	AK105925.1	-	H+-transporting ATP synthase chain 9-like protein	3e-8	At4g32260	ATP synthase family	O.I.	H.G.	S.X.
0.38	46.9	0.96	Os07g0152900	AK062433.1	-	-	2e-11	At3g14420	(S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative	O.I.	H.G.	S.X.
0.38	46.9	0.96	Os04g0459500	AK071685.1	-	GADPH (383 AA) (Fragment)	6e-11	At1g12900	GAPA-2 (GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE A SUBUNIT 2)	O.I.	H.G.	S.X.
0.38	46.9	0.95	Os04g0445200	AK062427.1	-	Predicted enzyme of the cupin superfamily	1e+0	At5g42635	glycine-rich protein	O.I.	H.G.	S.X.
0.38	46.9	0.94	Os07g0171100	AK066475.1	-	TPR-like domain containing protein	2e-16	At1g55480	binding / protein binding	O.I.	H.G.	S.X.
0.38	46.9	0.96	Os09g0249900	AK099860.1	-	Ferredoxin-thioredoxin reductase (Fragment)	2e-18	At2g04700	ferredoxin thioredoxin reductase catalytic beta chain family protein	O.I.	H.G.	S.X.
0.36	44.0	0.96	Os06g0608700	AK064989.1	-	Fructose-bisphosphate aldolase, class-I familyprotein	1e-36	At4g26530	fructose-bisphosphate aldolase, putative	O.I.	H.G.	S.X.
0.34	40.0	0.95	Os01g0912700	AK068528.1	-	Conserved hypothetical protein	1e-1	At2g01340	unknown protein	O.I.	H.G.	S.X.
0.30	32.7	0.98	Os03g0129300	CB644543	-	Glyceraldehyde-3-phosphate dehydrogenase (EC1.2.1.13) (Fragment)	2e-29	At1g42970	GAPB (GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE B SUBUNIT)	O.I.	H.G.	S.X.
0.29	31.1	0.95	Os03g0773800	AK104821.1	-	Malate dehydrogenase, glyoxysomal precursor (EC1.1.1.37) (mbNAD-MDH)	2e-38	At5g09660	PMDH2 (peroxisomal NAD-malate dehydrogenase 2)	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
10.9 98.1 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.9 98.1 GSM195229 Endosperm GSE7951 Genome-wide gene expression profiling of rice stigma
10.2 98.0 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.8 98.0 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.2 97.9 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.1 97.9 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
8.6 97.8 GSM377086 Genomic DNA - 45 day old leaf sample - IR64 wtcheck GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.5 97.7 GSM377082 Genomic DNA - 45 day old leaf sample - mutant g9799 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.4 97.7 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
10.9	98.1	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.9	98.1	GSM195229	Endosperm	GSE7951	Genome-wide gene expression profiling of rice stigma
10.2	98.0	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.8	98.0	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.2	97.9	GSM377071	Genomic DNA - 45 day old leaf sample - mutant d256	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.1	97.9	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
8.6	97.8	GSM377086	Genomic DNA - 45 day old leaf sample - IR64 wtcheck	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.5	97.7	GSM377082	Genomic DNA - 45 day old leaf sample - mutant g9799	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.4	97.7	GSM377076	Genomic DNA - 45 day old leaf sample - mutant g6485	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.098 3 GO:0006096 The chemical reactions and pathways resulting in the breakdown of a monosaccharide (generally glucose) into pyruvate, with the concomitant production of a small amount of ATP. Pyruvate may be converted to ethanol, lactate, or other small molecules, or fed into the TCA cycle.
0.087 1 GO:0009052 The branch of the pentose-phosphate shunt which does not involve oxidation reactions. It comprises a series of sugar phosphate interconversions, starting with ribulose 5-P and producing fructose 6-P and glyceraldehyde 3-P.
0.043 1 GO:0007242 A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

SF	Genes	GO ID	Process Name
0.098	3	GO:0006096	The chemical reactions and pathways resulting in the breakdown of a monosaccharide (generally glucose) into pyruvate, with the concomitant production of a small amount of ATP. Pyruvate may be converted to ethanol, lactate, or other small molecules, or fed into the TCA cycle.
0.087	1	GO:0009052	The branch of the pentose-phosphate shunt which does not involve oxidation reactions. It comprises a series of sugar phosphate interconversions, starting with ribulose 5-P and producing fructose 6-P and glyceraldehyde 3-P.
0.043	1	GO:0007242	A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

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

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Gene ID	Os03g0267300
Gene name
Homology with Arabidopsis	Similar to At3g54050: fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative (HF=1e-24)
Module size	21 genes
NF	0.45
%ile	57.5

Co-expression analysis

Gene ID Os03g0267300 Gene name Homology with ArabidopsisSimilar to At3g54050: fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative (HF=1e-24) Module size 21 genes NF 0.45 %ile 57.5

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 Os03g0267300

Gene name
Homology with Arabidopsis Similar to At3g54050: fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative (HF=1e-24)

Module size 21 genes

NF 0.45

%ile 57.5

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