CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os08g0162400

Gene name
Homology with Arabidopsis Similar to At2g23780: zinc finger (C3HC4-type RING finger) family protein (HF=3e-4)

Module size 29 genes

NF 0.30

%ile 31.7

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
0.80 94.6 0.94 Os08g0162400 AK063453.1 - - 3e-4 At2g23780 zinc finger (C3HC4-type RING finger) family protein O.I. H.G. S.X.
0.45 58.8 0.95 Os05g0364500 AK103527.1 - Heat shock protein DnaJ family protein 1e-9 At5g49060 DNAJ heat shock N-terminal domain-containing protein O.I. H.G. S.X.
0.43 55.4 0.94 Os01g0770400 AK061585.1 - Cyclin-like F-box domain containing protein 4e-9 At1g30200 F-box family protein O.I. H.G. S.X.
0.41 52.4 0.94 Os06g0205000 9634.m01007 - Autophagy 12a (Autophagy APG12) 6e-3 At3g13970 APG12B (AUTOPHAGY 12 B) O.I. H.G. S.X.
0.39 48.3 0.95 Os02g0150100 AK100093.1 - The start codon is not identified. 6e-15 At5g51280 DEAD-box protein abstrakt, putative O.I. H.G. S.X.
0.38 46.9 0.96 Os04g0490700 AK072099.1 - Conserved hypothetical protein 5e+0 At4g28485 unknown protein O.I. H.G. S.X.
0.37 45.0 0.94 Os05g0275700 AK111642.1 - Peroxisome assembly protein 2 (Peroxin-2)(AthPEX2) (Pex2p) 4e-15 At1g79810 TED3 (REVERSAL OF THE DET PHENOTYPE 3) O.I. H.G. S.X.
0.36 44.0 0.95 Os12g0583000 AK110753.1 - - 4e-11 At2g40190 glycosyl transferase family 1 protein O.I. H.G. S.X.
0.35 41.7 0.95 Os02g0294700 AK070497.1 - Conserved hypothetical protein 7e-6 At1g79090 unknown protein O.I. H.G. S.X.
0.33 38.8 0.96 Os09g0514900 AK102371.1 - Protein of unknown function DUF654 family protein 2e-2 At2g46900 - O.I. H.G. S.X.
0.33 38.8 0.94 Os07g0409700 AK072253.1 - Mitochondrial import inner membrane translocase,subunit Tim44 family protein 3e-7 At2g20510 ATTIM44-1 O.I. H.G. S.X.
0.32 36.3 0.95 Os01g0108000 BI812665 - Conserved hypothetical protein 2e+0 At1g14170 KH domain-containing protein O.I. H.G. S.X.
0.29 31.1 0.95 Os01g0265700 AK111252.1 - Conserved hypothetical protein 2e+0 At4g18830 OFP5 (ARABIDOPSIS THALIANA OVATE FAMILY PROTEIN 5) O.I. H.G. S.X.
0.29 31.1 0.94 Os05g0150400 AK110983.1 - Double-stranded RNA binding domain containingprotein 1e-6 At3g26932 DRB3 (dsRNA-binding protein 3) O.I. H.G. S.X.
0.29 31.1 0.96 Os02g0782200 AK070439.1 - NOT2/NOT3/NOT5 family protein 6e-9 At1g07705 transcription regulator O.I. H.G. S.X.
0.28 31.1 0.96 Os07g0660200 AK067331.1 - Chromodomain-helicase-DNA-binding protein,CHD-1-related 6e-28 At2g13370 CHR5 (chromatin remodeling 5) O.I. H.G. S.X.
0.28 31.1 0.93 Os02g0505400 AK102812.1 - Exo70 exocyst complex subunit family protein 4e-2 At1g29790 - O.I. H.G. S.X.
0.28 31.1 0.96 Os06g0715000 AK107114.1 - Hypothetical protein 2e-1 At4g09770 meprin and TRAF homology domain-containing protein / MATH domain-containing protein O.I. H.G. S.X.
0.27 27.5 0.95 Os02g0272600 AK104758.1 - Aph-1 family protein 9e-3 At2g31440 protein binding O.I. H.G. S.X.
0.27 27.5 0.94 Os04g0674200 AK103795.1 - Coenzyme Q biosynthesis Coq4 family protein 2e-6 At2g03690 coenzyme Q biosynthesis Coq4 family protein / ubiquinone biosynthesis Coq4 family protein O.I. H.G. S.X.
0.26 25.6 0.95 Os08g0152500 AK060448.1 - Conserved hypothetical protein 4e-2 At3g05640 protein phosphatase 2C, putative / PP2C, putative O.I. H.G. S.X.
0.26 25.6 0.95 Os11g0183700 AK066941.1 - SWIRM domain containing protein 2e-2 At1g21700 ATSWI3C (SWITCH/SUCROSE NONFERMENTING 3C) O.I. H.G. S.X.
0.26 25.6 0.95 Os03g0826400 AK071472.1 - RNA-binding region RNP-1 (RNA recognition motif)domain containing protein 7e-10 At3g47120 RNA recognition motif (RRM)-containing protein O.I. H.G. S.X.
0.24 22.4 0.95 Os05g0392100 AK099734.1 - Conserved hypothetical protein 2e-3 At4g17620 glycine-rich protein O.I. H.G. S.X.
0.23 21.2 0.95 Os12g0124400 AK071024.1 - Exostosin-like family protein 2e-1 At1g52900 disease resistance protein (TIR class), putative O.I. H.G. S.X.
0.19 15.1 0.95 Os01g0759700 AK101627.1 - Conserved hypothetical protein 9e-10 At1g29220 transcriptional regulator family protein O.I. H.G. S.X.
0.17 12.6 0.96 Os08g0374200 CR278593 - Conserved hypothetical protein 2e+0 At5g44130 FLA13 (FASCICLIN-LIKE ARABINOGALACTAN PROTEIN 13 PRECURSOR) O.I. H.G. S.X.
0.16 11.3 0.95 Os01g0182900 AK061255.1 - Hypothetical protein 1e+1 At5g16023 RTFL18 (ROTUNDIFOLIA LIKE 18) O.I. H.G. S.X.
0.13 8.2 0.95 Os11g0473200 AK106730.1 - Ubiquitin carboxyl-terminal hydrolase 12 (EC3.1.2.15) (Ubiquitin thiolesterase 12)(Ubiquitin-specific processing protease 12)(Deubiquitinating enzyme 12) 2e-5 At2g40930 UBP5 (UBIQUITIN-SPECIFIC PROTEASE 5) 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	0.94	Os08g0162400	AK063453.1	-	-	3e-4	At2g23780	zinc finger (C3HC4-type RING finger) family protein	O.I.	H.G.	S.X.
0.45	58.8	0.95	Os05g0364500	AK103527.1	-	Heat shock protein DnaJ family protein	1e-9	At5g49060	DNAJ heat shock N-terminal domain-containing protein	O.I.	H.G.	S.X.
0.43	55.4	0.94	Os01g0770400	AK061585.1	-	Cyclin-like F-box domain containing protein	4e-9	At1g30200	F-box family protein	O.I.	H.G.	S.X.
0.41	52.4	0.94	Os06g0205000	9634.m01007	-	Autophagy 12a (Autophagy APG12)	6e-3	At3g13970	APG12B (AUTOPHAGY 12 B)	O.I.	H.G.	S.X.
0.39	48.3	0.95	Os02g0150100	AK100093.1	-	The start codon is not identified.	6e-15	At5g51280	DEAD-box protein abstrakt, putative	O.I.	H.G.	S.X.
0.38	46.9	0.96	Os04g0490700	AK072099.1	-	Conserved hypothetical protein	5e+0	At4g28485	unknown protein	O.I.	H.G.	S.X.
0.37	45.0	0.94	Os05g0275700	AK111642.1	-	Peroxisome assembly protein 2 (Peroxin-2)(AthPEX2) (Pex2p)	4e-15	At1g79810	TED3 (REVERSAL OF THE DET PHENOTYPE 3)	O.I.	H.G.	S.X.
0.36	44.0	0.95	Os12g0583000	AK110753.1	-	-	4e-11	At2g40190	glycosyl transferase family 1 protein	O.I.	H.G.	S.X.
0.35	41.7	0.95	Os02g0294700	AK070497.1	-	Conserved hypothetical protein	7e-6	At1g79090	unknown protein	O.I.	H.G.	S.X.
0.33	38.8	0.96	Os09g0514900	AK102371.1	-	Protein of unknown function DUF654 family protein	2e-2	At2g46900	-	O.I.	H.G.	S.X.
0.33	38.8	0.94	Os07g0409700	AK072253.1	-	Mitochondrial import inner membrane translocase,subunit Tim44 family protein	3e-7	At2g20510	ATTIM44-1	O.I.	H.G.	S.X.
0.32	36.3	0.95	Os01g0108000	BI812665	-	Conserved hypothetical protein	2e+0	At1g14170	KH domain-containing protein	O.I.	H.G.	S.X.
0.29	31.1	0.95	Os01g0265700	AK111252.1	-	Conserved hypothetical protein	2e+0	At4g18830	OFP5 (ARABIDOPSIS THALIANA OVATE FAMILY PROTEIN 5)	O.I.	H.G.	S.X.
0.29	31.1	0.94	Os05g0150400	AK110983.1	-	Double-stranded RNA binding domain containingprotein	1e-6	At3g26932	DRB3 (dsRNA-binding protein 3)	O.I.	H.G.	S.X.
0.29	31.1	0.96	Os02g0782200	AK070439.1	-	NOT2/NOT3/NOT5 family protein	6e-9	At1g07705	transcription regulator	O.I.	H.G.	S.X.
0.28	31.1	0.96	Os07g0660200	AK067331.1	-	Chromodomain-helicase-DNA-binding protein,CHD-1-related	6e-28	At2g13370	CHR5 (chromatin remodeling 5)	O.I.	H.G.	S.X.
0.28	31.1	0.93	Os02g0505400	AK102812.1	-	Exo70 exocyst complex subunit family protein	4e-2	At1g29790	-	O.I.	H.G.	S.X.
0.28	31.1	0.96	Os06g0715000	AK107114.1	-	Hypothetical protein	2e-1	At4g09770	meprin and TRAF homology domain-containing protein / MATH domain-containing protein	O.I.	H.G.	S.X.
0.27	27.5	0.95	Os02g0272600	AK104758.1	-	Aph-1 family protein	9e-3	At2g31440	protein binding	O.I.	H.G.	S.X.
0.27	27.5	0.94	Os04g0674200	AK103795.1	-	Coenzyme Q biosynthesis Coq4 family protein	2e-6	At2g03690	coenzyme Q biosynthesis Coq4 family protein / ubiquinone biosynthesis Coq4 family protein	O.I.	H.G.	S.X.
0.26	25.6	0.95	Os08g0152500	AK060448.1	-	Conserved hypothetical protein	4e-2	At3g05640	protein phosphatase 2C, putative / PP2C, putative	O.I.	H.G.	S.X.
0.26	25.6	0.95	Os11g0183700	AK066941.1	-	SWIRM domain containing protein	2e-2	At1g21700	ATSWI3C (SWITCH/SUCROSE NONFERMENTING 3C)	O.I.	H.G.	S.X.
0.26	25.6	0.95	Os03g0826400	AK071472.1	-	RNA-binding region RNP-1 (RNA recognition motif)domain containing protein	7e-10	At3g47120	RNA recognition motif (RRM)-containing protein	O.I.	H.G.	S.X.
0.24	22.4	0.95	Os05g0392100	AK099734.1	-	Conserved hypothetical protein	2e-3	At4g17620	glycine-rich protein	O.I.	H.G.	S.X.
0.23	21.2	0.95	Os12g0124400	AK071024.1	-	Exostosin-like family protein	2e-1	At1g52900	disease resistance protein (TIR class), putative	O.I.	H.G.	S.X.
0.19	15.1	0.95	Os01g0759700	AK101627.1	-	Conserved hypothetical protein	9e-10	At1g29220	transcriptional regulator family protein	O.I.	H.G.	S.X.
0.17	12.6	0.96	Os08g0374200	CR278593	-	Conserved hypothetical protein	2e+0	At5g44130	FLA13 (FASCICLIN-LIKE ARABINOGALACTAN PROTEIN 13 PRECURSOR)	O.I.	H.G.	S.X.
0.16	11.3	0.95	Os01g0182900	AK061255.1	-	Hypothetical protein	1e+1	At5g16023	RTFL18 (ROTUNDIFOLIA LIKE 18)	O.I.	H.G.	S.X.
0.13	8.2	0.95	Os11g0473200	AK106730.1	-	Ubiquitin carboxyl-terminal hydrolase 12 (EC3.1.2.15) (Ubiquitin thiolesterase 12)(Ubiquitin-specific processing protease 12)(Deubiquitinating enzyme 12)	2e-5	At2g40930	UBP5 (UBIQUITIN-SPECIFIC PROTEASE 5)	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
22.6 99.3 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
14.2 98.5 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2 98.4 GSM195227 Anther GSE7951 Genome-wide gene expression profiling of rice stigma
12.8 98.4 GSM377072 Genomic DNA - 45 day old leaf sample - mutant d1137 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.3 98.3 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.1 98.3 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.0 98.3 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
11.6 98.2 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.3 98.2 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.9 98.1 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 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
22.6	99.3	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
14.2	98.5	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2	98.4	GSM195227	Anther	GSE7951	Genome-wide gene expression profiling of rice stigma
12.8	98.4	GSM377072	Genomic DNA - 45 day old leaf sample - mutant d1137	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.3	98.3	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.1	98.3	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.0	98.3	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
11.6	98.2	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.3	98.2	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
10.9	98.1	GSM377077	Genomic DNA - 45 day old leaf sample - mutant g6489	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
0.067 1 GO:0043085 Any process that activates or increases the activity of an enzyme.
0.065 1 GO:0016485 The posttranslational modification, which may include cleavage of peptide bonds, of a protein, leading to the attainment of the full functional capacity of the protein. Protein processing particularly affects secretory proteins and proteins targeted for membranes or specific cellular locations.
0.042 1 GO:0006887 A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell. This is the process whereby most molecules are secreted from eukaryotic cells.

SF	Genes	GO ID	Process Name
0.067	1	GO:0043085	Any process that activates or increases the activity of an enzyme.
0.065	1	GO:0016485	The posttranslational modification, which may include cleavage of peptide bonds, of a protein, leading to the attainment of the full functional capacity of the protein. Protein processing particularly affects secretory proteins and proteins targeted for membranes or specific cellular locations.
0.042	1	GO:0006887	A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell. This is the process whereby most molecules are secreted from eukaryotic cells.

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	Os08g0162400
Gene name
Homology with Arabidopsis	Similar to At2g23780: zinc finger (C3HC4-type RING finger) family protein (HF=3e-4)
Module size	29 genes
NF	0.30
%ile	31.7

Co-expression analysis

Gene ID Os08g0162400 Gene name Homology with ArabidopsisSimilar to At2g23780: zinc finger (C3HC4-type RING finger) family protein (HF=3e-4) Module size 29 genes NF 0.30 %ile 31.7

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 Os08g0162400

Gene name
Homology with Arabidopsis Similar to At2g23780: zinc finger (C3HC4-type RING finger) family protein (HF=3e-4)

Module size 29 genes

NF 0.30

%ile 31.7

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