CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os03g0138500

Gene name
Homology with Arabidopsis Similar to At3g10040: transcription factor (HF=5e-2)

Module size 37 genes

NF 0.66

%ile 88.6

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 0.88 Os03g0138500 AK102410.1 - Hypothetical protein 5e-2 At3g10040 transcription factor O.I. H.G. S.X.
0.81 94.8 0.91 Os02g0574600 AK059246.1 - Conserved hypothetical protein 1e-1 At1g35780 unknown protein O.I. H.G. S.X.
0.79 93.6 0.95 Os01g0191800 AK102360.1 - Serine/threonine-protein kinase 12 (EC 2.7.1.37)(Aurora-B) (Fragment) 1e-17 At2g25880 AtAUR2 (AtAurora2) O.I. H.G. S.X.
0.74 91.4 0.93 Os08g0101100 AK069900.1 - HMG1/2 (high mobility group) box family protein 3e-2 At2g42395 unknown protein O.I. H.G. S.X.
0.74 91.4 0.95 Os02g0810200 AK059635.1 - Hypothetical protein 3e-2 At1g16610 SR45 O.I. H.G. S.X.
0.73 91.1 0.94 Os11g0484300 AK121422.1 - MCM protein 2 family protein 5e-87 At1g44900 ATP binding / DNA binding / DNA-dependent ATPase O.I. H.G. S.X.
0.72 89.8 0.93 Os01g0273100 AK105320.1 - Cyclin-selective ubiquitin carrier protein E2-C 3e-5 At1g50490 UBC20 (ubiquitin-conjugating enzyme 20) O.I. H.G. S.X.
0.72 89.8 0.94 Os04g0228100 AK059410.1 - Conserved hypothetical protein 3e-6 At4g02800 unknown protein O.I. H.G. S.X.
0.72 89.8 0.96 Os12g0120000 AK105399.1 - Plant protein of unknown function DUF936 familyprotein 1e+0 At2g44560 AtGH9B11 (Arabidopsis thaliana glycosyl hydrolase 9B11) O.I. H.G. S.X.
0.72 89.8 0.94 Os10g0577400 AK064295.1 - Conserved hypothetical protein 2e-1 At1g22890 unknown protein O.I. H.G. S.X.
0.71 89.6 0.95 Os03g0214100 AB111916.1 - Replication protein A1 1e-9 At5g61000 replication protein, putative O.I. H.G. S.X.
0.70 88.4 0.96 Os05g0476200 AK063430.1 - Replication origin activator 2 6e-86 At5g46280 DNA replication licensing factor, putative O.I. H.G. S.X.
0.70 88.4 0.95 Os03g0587200 AK121995.1 - Kinesin, motor region domain containing protein 8e-6 At3g20150 kinesin motor family protein O.I. H.G. S.X.
0.70 88.4 0.94 Os04g0375900 AK101769.1 - Kinesin, motor region domain containing protein 5e-3 At1g07135 glycine-rich protein O.I. H.G. S.X.
0.68 87.5 0.94 Os02g0742800 AK106279.1 - Hypothetical protein 3e-4 At5g47820 FRA1 (FRAGILE FIBER 1) O.I. H.G. S.X.
0.68 87.5 0.94 Os09g0560000 AK073825.1 - Arabidopsis thaliana protein of unknown functionDUF813 family protein 3e-2 At2g07170 binding O.I. H.G. S.X.
0.67 87.2 0.94 Os04g0512400 AK103203.1 - BRCT domain containing protein 1e+0 At1g77932 - O.I. H.G. S.X.
0.66 83.9 0.94 Os01g0931200 AK063586.1 - ARM repeat fold domain containing protein 2e-1 At5g55850 NOI O.I. H.G. S.X.
0.66 83.9 0.95 Os07g0105700 AK063949.1 - Carboxy-terminal kinesin 2 (XCTK2) 9e-8 At4g05190 ATK5 (ARABIDOPSIS THALIANA KINESIN 5) O.I. H.G. S.X.
0.65 83.8 0.92 Os01g0605500 9629.m04029 - Kinesin, motor region domain containing protein 5e-12 At1g18550 ATP binding / microtubule motor O.I. H.G. S.X.
0.65 83.8 0.95 Os01g0685900 AK064024.1 - 65kD microtubule associated protein 1e-6 At5g51600 PLE (PLEIADE) O.I. H.G. S.X.
0.63 82.7 0.95 Os08g0512600 D64036.1 - Protein cdc2 kinase 2e-7 At1g76540 CDKB2 O.I. H.G. S.X.
0.63 82.7 0.95 Os03g0659800 AK062366.1 - Paired amphipathic helix repeat containing protein 1e-7 At1g16520 unknown protein O.I. H.G. S.X.
0.62 81.5 0.92 Os04g0496300 AK062810.1 - Conserved hypothetical protein 5e-4 At5g16250 unknown protein O.I. H.G. S.X.
0.62 81.5 0.94 Os03g0672400 AK061599.1 - Conserved hypothetical protein 6e+0 At5g05965 unknown protein O.I. H.G. S.X.
0.61 81.2 0.94 Os02g0829100 AB037145.1 - Nucleic acid-binding OB-fold domain containingprotein 3e+0 At5g01390 DNAJ heat shock protein, putative O.I. H.G. S.X.
0.60 79.7 0.94 Os01g0805600 AK111939.1 - Cyclin IaZm (Fragment) 1e-6 At2g26760 CYCB1 O.I. H.G. S.X.
0.60 79.7 0.96 Os03g0288900 AK100329.1 - Hypothetical protein 3e-1 At1g05300 ZIP5 O.I. H.G. S.X.
0.59 78.0 0.94 Os02g0816400 AK100544.1 - Conserved hypothetical protein 1e-1 At3g02150 PTF1 (PLASTID TRANSCRIPTION FACTOR 1) O.I. H.G. S.X.
0.58 77.0 0.94 Os01g0532800 AK060594.1 - - 2e-2 At5g47550 cysteine protease inhibitor, putative / cystatin, putative O.I. H.G. S.X.
0.57 77.0 0.95 Os01g0904400 AK103514.1 - SMC2-1 1e-29 At5g62410 SMC2 (STRUCTURAL MAINTENANCE OF CHROMOSOMES 2) O.I. H.G. S.X.
0.57 77.0 0.94 Os04g0599800 AK103675.1 - WD-repeat protein-like protein 2e-14 At4g33260 CDC20.2 O.I. H.G. S.X.
0.55 73.7 0.95 Os02g0699700 AK072471.1 - DNA topoisomerase II 1e-8 At3g23890 TOPII (TOPOISOMERASE II) O.I. H.G. S.X.
0.54 71.9 0.92 Os01g0779800 AK119965.1 - Hypothetical protein 4e-2 At4g28180 unknown protein O.I. H.G. S.X.
0.53 71.3 0.93 Os03g0736500 9631.m05153 - Syntaxin-related protein KNOLLE (Syntaxin 111)(AtSYP111) 4e-5 At3g11820 SYP121 (SYNTAXIN OF PLANTS 121) O.I. H.G. S.X.
0.50 68.0 0.93 Os03g0770900 AK106660.1 - Hypothetical protein 1e+0 At5g10310 unknown protein O.I. H.G. S.X.
0.46 60.9 0.94 Os03g0212600 AK064500.1 - Targeting for Xklp2 family protein 5e-8 At5g15510 - 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	0.88	Os03g0138500	AK102410.1	-	Hypothetical protein	5e-2	At3g10040	transcription factor	O.I.	H.G.	S.X.
0.81	94.8	0.91	Os02g0574600	AK059246.1	-	Conserved hypothetical protein	1e-1	At1g35780	unknown protein	O.I.	H.G.	S.X.
0.79	93.6	0.95	Os01g0191800	AK102360.1	-	Serine/threonine-protein kinase 12 (EC 2.7.1.37)(Aurora-B) (Fragment)	1e-17	At2g25880	AtAUR2 (AtAurora2)	O.I.	H.G.	S.X.
0.74	91.4	0.93	Os08g0101100	AK069900.1	-	HMG1/2 (high mobility group) box family protein	3e-2	At2g42395	unknown protein	O.I.	H.G.	S.X.
0.74	91.4	0.95	Os02g0810200	AK059635.1	-	Hypothetical protein	3e-2	At1g16610	SR45	O.I.	H.G.	S.X.
0.73	91.1	0.94	Os11g0484300	AK121422.1	-	MCM protein 2 family protein	5e-87	At1g44900	ATP binding / DNA binding / DNA-dependent ATPase	O.I.	H.G.	S.X.
0.72	89.8	0.93	Os01g0273100	AK105320.1	-	Cyclin-selective ubiquitin carrier protein E2-C	3e-5	At1g50490	UBC20 (ubiquitin-conjugating enzyme 20)	O.I.	H.G.	S.X.
0.72	89.8	0.94	Os04g0228100	AK059410.1	-	Conserved hypothetical protein	3e-6	At4g02800	unknown protein	O.I.	H.G.	S.X.
0.72	89.8	0.96	Os12g0120000	AK105399.1	-	Plant protein of unknown function DUF936 familyprotein	1e+0	At2g44560	AtGH9B11 (Arabidopsis thaliana glycosyl hydrolase 9B11)	O.I.	H.G.	S.X.
0.72	89.8	0.94	Os10g0577400	AK064295.1	-	Conserved hypothetical protein	2e-1	At1g22890	unknown protein	O.I.	H.G.	S.X.
0.71	89.6	0.95	Os03g0214100	AB111916.1	-	Replication protein A1	1e-9	At5g61000	replication protein, putative	O.I.	H.G.	S.X.
0.70	88.4	0.96	Os05g0476200	AK063430.1	-	Replication origin activator 2	6e-86	At5g46280	DNA replication licensing factor, putative	O.I.	H.G.	S.X.
0.70	88.4	0.95	Os03g0587200	AK121995.1	-	Kinesin, motor region domain containing protein	8e-6	At3g20150	kinesin motor family protein	O.I.	H.G.	S.X.
0.70	88.4	0.94	Os04g0375900	AK101769.1	-	Kinesin, motor region domain containing protein	5e-3	At1g07135	glycine-rich protein	O.I.	H.G.	S.X.
0.68	87.5	0.94	Os02g0742800	AK106279.1	-	Hypothetical protein	3e-4	At5g47820	FRA1 (FRAGILE FIBER 1)	O.I.	H.G.	S.X.
0.68	87.5	0.94	Os09g0560000	AK073825.1	-	Arabidopsis thaliana protein of unknown functionDUF813 family protein	3e-2	At2g07170	binding	O.I.	H.G.	S.X.
0.67	87.2	0.94	Os04g0512400	AK103203.1	-	BRCT domain containing protein	1e+0	At1g77932	-	O.I.	H.G.	S.X.
0.66	83.9	0.94	Os01g0931200	AK063586.1	-	ARM repeat fold domain containing protein	2e-1	At5g55850	NOI	O.I.	H.G.	S.X.
0.66	83.9	0.95	Os07g0105700	AK063949.1	-	Carboxy-terminal kinesin 2 (XCTK2)	9e-8	At4g05190	ATK5 (ARABIDOPSIS THALIANA KINESIN 5)	O.I.	H.G.	S.X.
0.65	83.8	0.92	Os01g0605500	9629.m04029	-	Kinesin, motor region domain containing protein	5e-12	At1g18550	ATP binding / microtubule motor	O.I.	H.G.	S.X.
0.65	83.8	0.95	Os01g0685900	AK064024.1	-	65kD microtubule associated protein	1e-6	At5g51600	PLE (PLEIADE)	O.I.	H.G.	S.X.
0.63	82.7	0.95	Os08g0512600	D64036.1	-	Protein cdc2 kinase	2e-7	At1g76540	CDKB2	O.I.	H.G.	S.X.
0.63	82.7	0.95	Os03g0659800	AK062366.1	-	Paired amphipathic helix repeat containing protein	1e-7	At1g16520	unknown protein	O.I.	H.G.	S.X.
0.62	81.5	0.92	Os04g0496300	AK062810.1	-	Conserved hypothetical protein	5e-4	At5g16250	unknown protein	O.I.	H.G.	S.X.
0.62	81.5	0.94	Os03g0672400	AK061599.1	-	Conserved hypothetical protein	6e+0	At5g05965	unknown protein	O.I.	H.G.	S.X.
0.61	81.2	0.94	Os02g0829100	AB037145.1	-	Nucleic acid-binding OB-fold domain containingprotein	3e+0	At5g01390	DNAJ heat shock protein, putative	O.I.	H.G.	S.X.
0.60	79.7	0.94	Os01g0805600	AK111939.1	-	Cyclin IaZm (Fragment)	1e-6	At2g26760	CYCB1	O.I.	H.G.	S.X.
0.60	79.7	0.96	Os03g0288900	AK100329.1	-	Hypothetical protein	3e-1	At1g05300	ZIP5	O.I.	H.G.	S.X.
0.59	78.0	0.94	Os02g0816400	AK100544.1	-	Conserved hypothetical protein	1e-1	At3g02150	PTF1 (PLASTID TRANSCRIPTION FACTOR 1)	O.I.	H.G.	S.X.
0.58	77.0	0.94	Os01g0532800	AK060594.1	-	-	2e-2	At5g47550	cysteine protease inhibitor, putative / cystatin, putative	O.I.	H.G.	S.X.
0.57	77.0	0.95	Os01g0904400	AK103514.1	-	SMC2-1	1e-29	At5g62410	SMC2 (STRUCTURAL MAINTENANCE OF CHROMOSOMES 2)	O.I.	H.G.	S.X.
0.57	77.0	0.94	Os04g0599800	AK103675.1	-	WD-repeat protein-like protein	2e-14	At4g33260	CDC20.2	O.I.	H.G.	S.X.
0.55	73.7	0.95	Os02g0699700	AK072471.1	-	DNA topoisomerase II	1e-8	At3g23890	TOPII (TOPOISOMERASE II)	O.I.	H.G.	S.X.
0.54	71.9	0.92	Os01g0779800	AK119965.1	-	Hypothetical protein	4e-2	At4g28180	unknown protein	O.I.	H.G.	S.X.
0.53	71.3	0.93	Os03g0736500	9631.m05153	-	Syntaxin-related protein KNOLLE (Syntaxin 111)(AtSYP111)	4e-5	At3g11820	SYP121 (SYNTAXIN OF PLANTS 121)	O.I.	H.G.	S.X.
0.50	68.0	0.93	Os03g0770900	AK106660.1	-	Hypothetical protein	1e+0	At5g10310	unknown protein	O.I.	H.G.	S.X.
0.46	60.9	0.94	Os03g0212600	AK064500.1	-	Targeting for Xklp2 family protein	5e-8	At5g15510	-	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
20.4 99.1 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
16.2 98.8 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
7.7 97.6 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.1 97.4 GSM195227 Anther GSE7951 Genome-wide gene expression profiling of rice stigma
6.7 97.3 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.7 97.3 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.6 97.3 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2 97.1 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2 97.1 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.0 97.0 GSM377082 Genomic DNA - 45 day old leaf sample - mutant g9799 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
20.4	99.1	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
16.2	98.8	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
7.7	97.6	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.1	97.4	GSM195227	Anther	GSE7951	Genome-wide gene expression profiling of rice stigma
6.7	97.3	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.7	97.3	GSM377076	Genomic DNA - 45 day old leaf sample - mutant g6485	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.6	97.3	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2	97.1	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.2	97.1	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.0	97.0	GSM377082	Genomic DNA - 45 day old leaf sample - mutant g9799	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
0.053 1 GO:0000278 Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.
0.053 1 GO:0007059 The process by which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets.
0.050 1 GO:0007067 A cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell.

SF	Genes	GO ID	Process Name
0.053	1	GO:0000278	Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.
0.053	1	GO:0007059	The process by which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets.
0.050	1	GO:0007067	A cell cycle process comprising the steps by which the nucleus of a eukaryotic cell divides; the process involves condensation of chromosomal DNA into a highly compacted form. Canonically, mitosis produces two daughter nuclei whose chromosome complement is identical to that of the mother cell.

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	Os03g0138500
Gene name
Homology with Arabidopsis	Similar to At3g10040: transcription factor (HF=5e-2)
Module size	37 genes
NF	0.66
%ile	88.6

Co-expression analysis

Gene ID Os03g0138500 Gene name Homology with ArabidopsisSimilar to At3g10040: transcription factor (HF=5e-2) Module size 37 genes NF 0.66 %ile 88.6

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 Os03g0138500

Gene name
Homology with Arabidopsis Similar to At3g10040: transcription factor (HF=5e-2)

Module size 37 genes

NF 0.66

%ile 88.6

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