CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os04g0684300

Gene name
Homology with Arabidopsis Similar to Atcg00560: - (HF=2e+1)

Module size 6 genes

NF 0.64

%ile 86.6

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
0.91 98.9 0.92 Os04g0684300 AK105205.1 - Hypothetical protein 2e+1 Atcg00560 - O.I. H.G. S.X.
0.61 81.2 0.92 Os04g0423800 AK108989.1 - Peroxidase precursor (EC 1.11.1.7) 3e-3 At1g44970 peroxidase, putative O.I. H.G. S.X.
0.59 78.0 0.92 Os03g0245500 AK064707.1 - Curculin-like (mannose-binding) lectin domaincontaining protein 1e+1 At5g53560 CB5-E (CYTOCHROME B5 ISOFORM E) O.I. H.G. S.X.
0.55 73.7 0.93 Os07g0193000 9635.m00915 - HIPL1 protein precursor 3e-1 At5g62630 HIPL2 (HIPL2 PROTEIN PRECURSOR) O.I. H.G. S.X.
0.47 62.3 0.92 Os07g0421300 AK121014.1 - Glycoside hydrolase, family 31 protein 7e-15 At3g23640 HGL1 (heteroglycan glucosidase 1) O.I. H.G. S.X.
0.44 58.1 0.93 Os05g0276500 U30479.1 - Expansin Os-EXPA3 5e-1 At2g39700 ATEXPA4 (ARABIDOPSIS THALIANA EXPANSIN A4) 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.
0.91	98.9	0.92	Os04g0684300	AK105205.1	-	Hypothetical protein	2e+1	Atcg00560	-	O.I.	H.G.	S.X.
0.61	81.2	0.92	Os04g0423800	AK108989.1	-	Peroxidase precursor (EC 1.11.1.7)	3e-3	At1g44970	peroxidase, putative	O.I.	H.G.	S.X.
0.59	78.0	0.92	Os03g0245500	AK064707.1	-	Curculin-like (mannose-binding) lectin domaincontaining protein	1e+1	At5g53560	CB5-E (CYTOCHROME B5 ISOFORM E)	O.I.	H.G.	S.X.
0.55	73.7	0.93	Os07g0193000	9635.m00915	-	HIPL1 protein precursor	3e-1	At5g62630	HIPL2 (HIPL2 PROTEIN PRECURSOR)	O.I.	H.G.	S.X.
0.47	62.3	0.92	Os07g0421300	AK121014.1	-	Glycoside hydrolase, family 31 protein	7e-15	At3g23640	HGL1 (heteroglycan glucosidase 1)	O.I.	H.G.	S.X.
0.44	58.1	0.93	Os05g0276500	U30479.1	-	Expansin Os-EXPA3	5e-1	At2g39700	ATEXPA4 (ARABIDOPSIS THALIANA EXPANSIN A4)	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.
0.80	94.6	0.90	Os01g0248900	AK111100.1	-	Expansin EXPA5	5e-10	At2g37640	EXP3	O.I.	H.G.	S.X.
0.73	91.1	0.89	Os10g0455300	BE039930	-	Conserved hypothetical protein	4e-1	At5g15960	KIN1	O.I.	H.G.	S.X.
0.71	89.6	0.89	Os10g0455100	CA758094	-	Eggshell protein family protein	9e-2	At5g39140	unknown protein	O.I.	H.G.	S.X.
0.67	87.2	0.81	Os10g0454700	AK109095.1	-	Eggshell protein family protein	2e-2	At2g21060	ATGRP2B (GLYCINE-RICH PROTEIN 2B)	O.I.	H.G.	S.X.
0.61	81.2	0.90	Os11g0557800	AK111347.1	-	Hypothetical protein	5e+0	At3g12480	NF-YC11 (NUCLEAR FACTOR Y, SUBUNIT C11)	O.I.	H.G.	S.X.
0.56	76.3	0.87	Os02g0650300	AK063464.1	-	Oligopeptide transporter OPT superfamily protein	4e-9	At4g24120	YSL1 (YELLOW STRIPE LIKE 1)	O.I.	H.G.	S.X.
0.55	73.7	0.89	Os05g0134700	AK064360.1	-	Haem peroxidase, plant/fungal/bacterial familyprotein	4e-2	At3g55880	unknown protein	O.I.	H.G.	S.X.
0.53	71.3	0.85	Os11g0151500	AK102457.1	-	Major facilitator superfamily protein	2e-1	At5g28440	unknown protein	O.I.	H.G.	S.X.
0.53	71.3	0.86	Os10g0155100	AK108770.1	-	Curculin-like (mannose-binding) lectin domaincontaining protein	3e+0	At3g04970	zinc finger (DHHC type) family protein	O.I.	H.G.	S.X.
0.50	68.0	0.89	Os03g0150800	AY332471.1	-	High affinity phosphate transporter 2 (Phosphatetransporter)	1e-12	At5g43340	PHT6	O.I.	H.G.	S.X.
0.50	68.0	0.89	Os10g0193100	CA755860	-	Plant lipid transfer/seed storage/trypsin-alphaamylase inhibitor domain containing protein	1e+0	At2g22800	HAT9	O.I.	H.G.	S.X.
0.46	60.9	0.87	Os05g0134800	9633.m00371	-	Haem peroxidase, plant/fungal/bacterial familyprotein	1e-2	At3g01190	peroxidase 27 (PER27) (P27) (PRXR7)	O.I.	H.G.	S.X.
0.46	60.9	0.87	Os09g0399800	AK059858.1	-	Probable mannitol dehydrogenase 1 (EC 1.1.1.255)(NAD-dependent mannitol dehydrogenase 1)	2e-1	At3g28560	-	O.I.	H.G.	S.X.
0.46	60.9	0.88	Os10g0555700	U95968.1	-	Major pollen allergen Lol pI family protein	3e+0	At2g44310	calcium-binding EF hand family protein	O.I.	H.G.	S.X.
0.43	55.4	0.90	Os12g0568500	9640.m03698	-	Metallothionein-like protein type 1	2e-2	At5g25490	zinc finger (Ran-binding) family protein	O.I.	H.G.	S.X.
0.42	53.9	0.89	Os02g0768300	AK073339.1	-	Protein of unknown function DUF6 domain containingprotein	2e-4	At1g21890	nodulin MtN21 family protein	O.I.	H.G.	S.X.
0.41	52.4	0.91	Os08g0477500	AU033142	-	S.tuberosum patatin (Fragment)	2e+0	At1g28280	VQ motif-containing protein	O.I.	H.G.	S.X.
0.40	51.1	0.86	Os12g0571000	9640.m03722	-	Metallothionein-like protein type 1	1e-1	At4g13850	GR-RBP2 (GLYCINE-RICH RNA-BINDING PROTEIN 2)	O.I.	H.G.	S.X.
0.40	51.1	0.89	Os09g0447500	AK110565.1	-	Cytochrome P450 family protein	6e-2	At1g13110	CYP71B7	O.I.	H.G.	S.X.
0.40	51.1	0.92	Os12g0639200	AK122160.1	-	AAA ATPase, central region domain containingprotein	4e-3	At4g05380	AAA-type ATPase family protein	O.I.	H.G.	S.X.
0.39	48.3	0.86	Os07g0639400	AK110555.1	-	Peroxidase 1	7e-4	At4g36430	peroxidase, putative	O.I.	H.G.	S.X.
0.39	48.3	0.85	Os01g0130100	9629.m00307	-	Hypothetical protein	3e-1	At5g07950	unknown protein	O.I.	H.G.	S.X.
0.39	48.3	0.88	Os09g0293500	9637.m00942	-	BRASSINOSTEROID INSENSITIVE 1 precursor (EC2.7.1.37) (AtBRI1) (Brassinosteroid LRR receptor kinase)	9e-15	At3g13380	BRL3 (BRI1-LIKE 3)	O.I.	H.G.	S.X.
0.38	46.9	0.86	Os02g0620600	AK107204.1	-	Rh-like protein/ammonium transporter familyprotein	2e-17	At4g13510	AMT1	O.I.	H.G.	S.X.
0.38	46.9	0.87	Os03g0795300	AK064239.1	-	Extensin protein-like	7e-1	At2g04038	AtbZIP48 (Arabidopsis thaliana basic leucine-zipper 48)	O.I.	H.G.	S.X.
0.36	44.0	0.84	Os01g0648000	AK120308.1	-	Potassium channel	3e-20	At2g26650	AKT1 (ARABIDOPSIS K TRANSPORTER 1)	O.I.	H.G.	S.X.
0.36	44.0	0.88	Os08g0245200	AK069932.1	-	4-coumarate--CoA ligase 1 (EC 6.2.1.12) (4CL 1)(4-coumaroyl-CoA synthase 1)	3e-10	At3g21240	4CL2 (4-COUMARATE:COA LIGASE 2)	O.I.	H.G.	S.X.
0.34	40.0	0.78	Os05g0213900	9633.m01095	-	Hypothetical protein	1e-1	At5g60680	unknown protein	O.I.	H.G.	S.X.
0.34	40.0	0.89	Os02g0512000	AK108786.1	-	Auxin responsive SAUR protein family protein	2e-1	At5g33390	glycine-rich protein	O.I.	H.G.	S.X.
0.33	38.8	0.86	Os11g0704800	AK109134.1	-	Membrane protein	2e-1	At2g29050	ATRBL1 (Arabidopsis thaliana Rhomboid-like 1)	O.I.	H.G.	S.X.
0.33	38.8	0.90	Os03g0216700	AK101556.1	-	Multi antimicrobial extrusion protein MatE familyprotein	2e-2	At5g65160	tetratricopeptide repeat (TPR)-containing protein	O.I.	H.G.	S.X.
0.33	38.8	0.91	Os07g0630400	AK060320.1	-	Ribonuclease T2 family protein	2e+0	At3g22580	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.32	36.3	0.88	Os10g0323500	AK071372.1	-	Beta-glucosidase	1e-6	At1g26560	BGLU40 (BETA GLUCOSIDASE 40)	O.I.	H.G.	S.X.
0.32	36.3	0.91	Os03g0103100	AY466108.1	-	Physical impedance induced protein	2e+0	At3g51510	unknown protein	O.I.	H.G.	S.X.
0.31	34.5	0.79	Os04g0674800	AK119913.1	-	Cellulase (Fragment)	1e+0	At1g02800	ATCEL2	O.I.	H.G.	S.X.
0.31	34.5	0.80	Os03g0237100	AK073738.1	-	Aldo/keto reductase family protein	2e-1	At1g11690	unknown protein	O.I.	H.G.	S.X.
0.31	34.5	0.92	Os01g0678800	AK062840.1	-	Heavy metal transport/detoxification proteindomain containing protein	3e-1	At1g20220	nucleic acid binding	O.I.	H.G.	S.X.
0.29	31.1	0.84	Os03g0307200	AB023818.1	-	Nicotianamine synthase 1 (EC 2.5.1.43)(S-adenosyl-L-methionine:S-adenosyl-L-methionine:S-adenosyl-methionine 3-amino-3-carboxypropyltransferase 1) (HvNAS1)	7e-1	At5g49170	unknown protein	O.I.	H.G.	S.X.
0.29	31.1	0.82	Os05g0472600	9633.m03682	-	Conserved hypothetical protein	2e-6	At4g19680	IRT2	O.I.	H.G.	S.X.
0.29	31.1	0.86	Os04g0554500	AY466109.1	-	Plant lipid transfer/seed storage/trypsin-alphaamylase inhibitor domain containing protein	2e+0	At2g25820	transcription factor	O.I.	H.G.	S.X.
0.29	31.1	0.86	Os01g0968300	AK122054.1	-	Root cap family protein	2e-1	At3g19430	late embryogenesis abundant protein-related / LEA protein-related	O.I.	H.G.	S.X.
0.29	31.1	0.87	Os05g0258400	9633.m01517	-	Protein kinase domain containing protein	2e-11	At1g53430	leucine-rich repeat family protein / protein kinase family protein	O.I.	H.G.	S.X.
0.29	31.1	0.91	Os03g0320100	CF280794	-	Alpha-L-arabinofuranosidase, C-terminal domaincontaining protein	1e-15	At3g10740	ASD1 (ALPHA-L-ARABINOFURANOSIDASE 1)	O.I.	H.G.	S.X.
0.28	31.1	0.87	Os03g0368900	AK120411.1	-	Haem peroxidase, plant/fungal/bacterial familyprotein	1e-2	At5g64120	peroxidase, putative	O.I.	H.G.	S.X.
0.28	31.1	0.87	Os07g0104500	AK108824.1	-	Haem peroxidase, plant/fungal/bacterial familyprotein	2e-1	At2g20080	unknown protein	O.I.	H.G.	S.X.
0.27	27.5	0.84	Os06g0169900	CB096301	-	Hypothetical protein	5e-1	At5g14320	30S ribosomal protein S13, chloroplast (CS13)	O.I.	H.G.	S.X.
0.27	27.5	0.80	Os05g0433800	9633.m03339	-	Protein of unknown function DUF1218 family protein	1e+0	At3g42310	unknown protein	O.I.	H.G.	S.X.
0.27	27.5	0.84	Os05g0280500	AK111471.1	-	Phospholipid/glycerol acyltransferase familyprotein	2e-8	At2g38110	GPAT6 (GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 6)	O.I.	H.G.	S.X.
0.27	27.5	0.87	Os02g0157600	9630.m00558	-	Rhodanese-like domain containing protein	6e+0	At5g66190	FNR1 (FERREDOXIN-NADP(+)-OXIDOREDUCTASE 1)	O.I.	H.G.	S.X.
0.27	27.5	0.89	Os05g0517900	CA761897	-	Appr>p cyclic nucleotide phosphodiesterase domaincontaining protein	1e-1	At2g20515	unknown protein	O.I.	H.G.	S.X.

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
41.8 99.9 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
9.7 98.0 GSM429984 Rice wild-type panicle rep2 GSE17194 Genome-wide gene expression profiling of rice Indica cultivar Zhongxian 3037 and mutant phoenix (pho) panicle
9.0 97.8 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
8.6 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
8.5 97.7 GSM159198 Inflorescence (P4, 10 - 15 cm), biological rep 1 GSE6893 Expression data for reproductive development in rice
8.2 97.7 GSM195227 Anther GSE7951 Genome-wide gene expression profiling of rice stigma
8.2 97.7 GSM377074 Genomic DNA - 45 day old leaf sample - mutant g282 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.1 97.7 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7 97.6 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.6 97.5 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 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
41.8	99.9	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
9.7	98.0	GSM429984	Rice wild-type panicle rep2	GSE17194	Genome-wide gene expression profiling of rice Indica cultivar Zhongxian 3037 and mutant phoenix (pho) panicle
9.0	97.8	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
8.6	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
8.5	97.7	GSM159198	Inflorescence (P4, 10 - 15 cm), biological rep 1	GSE6893	Expression data for reproductive development in rice
8.2	97.7	GSM195227	Anther	GSE7951	Genome-wide gene expression profiling of rice stigma
8.2	97.7	GSM377074	Genomic DNA - 45 day old leaf sample - mutant g282	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.1	97.7	GSM377077	Genomic DNA - 45 day old leaf sample - mutant g6489	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7	97.6	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.6	97.5	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	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
0.022 1 GO:0006979 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.022	1	GO:0006979	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.

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

Back to the KAGIANA project homepage

Gene ID	Os04g0684300
Gene name
Homology with Arabidopsis	Similar to Atcg00560: - (HF=2e+1)
Module size	6 genes
NF	0.64
%ile	86.6

Co-expression analysis

Gene ID Os04g0684300 Gene name Homology with ArabidopsisSimilar to Atcg00560: - (HF=2e+1) Module size 6 genes NF 0.64 %ile 86.6

Co-expressed 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 Os04g0684300

Gene name
Homology with Arabidopsis Similar to Atcg00560: - (HF=2e+1)

Module size 6 genes

NF 0.64

%ile 86.6

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