CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os01g0719100

Gene name
Homology with Arabidopsis Similar to At5g25560: zinc finger (C3HC4-type RING finger) family protein (HF=3e-11)

Module size 29 genes

NF 0.11

%ile 8.5

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
0.97 99.9 0.82 Os01g0719100 AK060327.1 - PGPD14 protein 3e-11 At5g25560 zinc finger (C3HC4-type RING finger) family protein O.I. H.G. S.X.
0.34 40.0 0.89 Os02g0670900 AK100650.1 - Amino acid transporter protein-like 2e-52 At1g20090 ROP2 (RHO-RELATED PROTEIN FROM PLANTS 2) O.I. H.G. S.X.
0.25 24.1 0.85 Os03g0161500 AK059911.1 - Conserved hypothetical protein 2e+0 At2g21400 SRS3 (SHI-RELATED SEQUENCE3) O.I. H.G. S.X.
0.25 24.1 0.92 Os03g0432900 CB626981 - MscS Mechanosensitive ion channel family protein 1e-1 At2g21330 fructose-bisphosphate aldolase, putative O.I. H.G. S.X.
0.24 22.4 0.89 Os09g0542100 AK105001.2 - Peptidase A1, pepsin family protein 9e-1 At4g35880 aspartyl protease family protein O.I. H.G. S.X.
0.23 21.2 0.90 Os12g0485500 AK071132.1 - HesB/YadR/YfhF family protein 4e-2 At2g16710 hesB-like domain-containing protein O.I. H.G. S.X.
0.18 13.7 0.94 Os10g0492800 AU056179 - Metallophosphoesterase domain containing protein 3e-3 At2g35960 NHL12 O.I. H.G. S.X.
0.17 12.6 0.89 Os09g0464000 AK060777.1 - Carbonic anhydrase, prokaryotic and plant domaincontaining protein 2e-1 At1g24822 unknown protein O.I. H.G. S.X.
0.17 12.6 0.89 Os03g0203200 AK070827.1 - Esterase/lipase/thioesterase domain containingprotein 1e-2 At3g03990 esterase/lipase/thioesterase family protein O.I. H.G. S.X.
0.17 12.6 0.93 Os10g0561400 AK105558.1 - Myb, DNA-binding domain containing protein 6e-8 At5g56840 DNA-binding family protein O.I. H.G. S.X.
0.16 11.3 0.84 Os10g0124100 AK120792.1 - Conserved hypothetical protein 4e+0 At5g64650 ribosomal protein L17 family protein O.I. H.G. S.X.
0.13 8.2 0.91 Os04g0320100 AK068015.1 - Coenzyme F420 hydrogenase/dehydrogenase betasubunit, N-terminal domain containing protein 7e-48 At1g04620 coenzyme F420 hydrogenase family / dehydrogenase, beta subunit family O.I. H.G. S.X.
0.12 7.2 0.94 Os03g0224200 AK111864.1 - Response regulator receiver domain containingprotein 6e-12 At2g01760 ARR14 (ARABIDOPSIS RESPONSE REGULATOR 14) O.I. H.G. S.X.
0.12 7.2 0.92 Os06g0140800 AK065683.1 - Protein kinase domain containing protein 4e-4 At5g26150 protein kinase family protein O.I. H.G. S.X.
0.12 7.2 0.89 Os12g0605800 AK121511.1 - Methylcrotonyl-CoA carboxylase alpha chain,mitochondrial precursor (EC 6.4.1.4)(3-Methylcrotonyl-CoA carboxylase 1) (MCCase alphasubunit) (3-methylcrotonyl-CoA:carbon dioxide ligasealpha subunit) 2e-15 At1g03090 MCCA O.I. H.G. S.X.
0.12 7.2 0.92 Os08g0518100 AK066731.1 - RabGAP/TBC domain containing protein 2e-3 At2g19240 RabGAP/TBC domain-containing protein O.I. H.G. S.X.
0.12 7.2 0.88 Os10g0516300 CB620164 - Electron transfer flavoprotein-ubiquinoneoxidoreductase, mitochondrial precursor (EC 1.5.5.1)(ETF-QO) (ETF-ubiquinone oxidoreductase) (ETFdehydrogenase) (Electron-transferring- flavoproteindehydrogenase). Splice isoform 2 8e-17 At2g43400 ETFQO (electron-transfer flavoprotein:ubiquinone oxidoreductase) O.I. H.G. S.X.
0.10 5.7 0.92 Os08g0431100 AK070049.1 - - 2e-2 At5g55600 agenet domain-containing protein / bromo-adjacent homology (BAH) domain-containing protein O.I. H.G. S.X.
0.10 5.7 0.91 Os05g0144100 AK069280.1 - - 6e-10 At4g03020 transducin family protein / WD-40 repeat family protein O.I. H.G. S.X.
0.10 5.7 0.91 Os02g0564000 AK073086.1 - Glutathione S-transferase 5e-1 At5g59850 40S ribosomal protein S15A (RPS15aF) O.I. H.G. S.X.
0.10 5.7 0.93 Os06g0199200 AK066664.1 - Smr protein/MutS2 C-terminal domain containingprotein 2e-2 At5g37760 DNAJ heat shock N-terminal domain-containing protein O.I. H.G. S.X.
0.08 4.2 0.90 Os10g0572700 AK100907.1 - Conserved hypothetical protein 3e-13 At2g30660 3-hydroxyisobutyryl-coenzyme A hydrolase, putative / CoA-thioester hydrolase, putative O.I. H.G. S.X.
0.07 3.7 0.92 Os07g0616900 AK071047.1 - Protein of unknown function DUF500 family protein 2e-8 At3g43230 zinc finger (FYVE type) family protein O.I. H.G. S.X.
0.07 3.7 0.94 Os03g0206900 AK108941.1 - Zn-finger, RING domain containing protein 8e+0 At5g50680 SAE1B (SUMO ACTIVATING ENZYME 1B) O.I. H.G. S.X.
0.06 3.0 0.90 Os04g0668700 AK062068.1 - Phosphatidylinositol 3- and 4-kinase domaincontaining protein 6e-6 At1g13640 phosphatidylinositol 3- and 4-kinase family protein O.I. H.G. S.X.
0.06 3.0 0.87 Os03g0429800 AK065099.1 - Xanthine dehydrogenase 1 (EC 1.1.1.204) 8e-22 At4g34890 XDH1 (XANTHINE DEHYDROGENASE 1) O.I. H.G. S.X.
0.04 2.0 0.90 Os11g0296500 AK069633.1 - Zn-finger, CCHC type domain containing protein 2e+0 At5g43430 ETFBETA O.I. H.G. S.X.
0.04 2.0 0.89 Os03g0847600 AK066947.1 - GAMYB-binding protein 8e-14 At4g13020 MHK O.I. H.G. S.X.
0.03 1.4 0.91 Os02g0777100 AK100528.1 - DENN domain containing protein 5e+0 At5g53850 haloacid dehalogenase-like hydrolase family protein 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.
0.97	99.9	0.82	Os01g0719100	AK060327.1	-	PGPD14 protein	3e-11	At5g25560	zinc finger (C3HC4-type RING finger) family protein	O.I.	H.G.	S.X.
0.34	40.0	0.89	Os02g0670900	AK100650.1	-	Amino acid transporter protein-like	2e-52	At1g20090	ROP2 (RHO-RELATED PROTEIN FROM PLANTS 2)	O.I.	H.G.	S.X.
0.25	24.1	0.85	Os03g0161500	AK059911.1	-	Conserved hypothetical protein	2e+0	At2g21400	SRS3 (SHI-RELATED SEQUENCE3)	O.I.	H.G.	S.X.
0.25	24.1	0.92	Os03g0432900	CB626981	-	MscS Mechanosensitive ion channel family protein	1e-1	At2g21330	fructose-bisphosphate aldolase, putative	O.I.	H.G.	S.X.
0.24	22.4	0.89	Os09g0542100	AK105001.2	-	Peptidase A1, pepsin family protein	9e-1	At4g35880	aspartyl protease family protein	O.I.	H.G.	S.X.
0.23	21.2	0.90	Os12g0485500	AK071132.1	-	HesB/YadR/YfhF family protein	4e-2	At2g16710	hesB-like domain-containing protein	O.I.	H.G.	S.X.
0.18	13.7	0.94	Os10g0492800	AU056179	-	Metallophosphoesterase domain containing protein	3e-3	At2g35960	NHL12	O.I.	H.G.	S.X.
0.17	12.6	0.89	Os09g0464000	AK060777.1	-	Carbonic anhydrase, prokaryotic and plant domaincontaining protein	2e-1	At1g24822	unknown protein	O.I.	H.G.	S.X.
0.17	12.6	0.89	Os03g0203200	AK070827.1	-	Esterase/lipase/thioesterase domain containingprotein	1e-2	At3g03990	esterase/lipase/thioesterase family protein	O.I.	H.G.	S.X.
0.17	12.6	0.93	Os10g0561400	AK105558.1	-	Myb, DNA-binding domain containing protein	6e-8	At5g56840	DNA-binding family protein	O.I.	H.G.	S.X.
0.16	11.3	0.84	Os10g0124100	AK120792.1	-	Conserved hypothetical protein	4e+0	At5g64650	ribosomal protein L17 family protein	O.I.	H.G.	S.X.
0.13	8.2	0.91	Os04g0320100	AK068015.1	-	Coenzyme F420 hydrogenase/dehydrogenase betasubunit, N-terminal domain containing protein	7e-48	At1g04620	coenzyme F420 hydrogenase family / dehydrogenase, beta subunit family	O.I.	H.G.	S.X.
0.12	7.2	0.94	Os03g0224200	AK111864.1	-	Response regulator receiver domain containingprotein	6e-12	At2g01760	ARR14 (ARABIDOPSIS RESPONSE REGULATOR 14)	O.I.	H.G.	S.X.
0.12	7.2	0.92	Os06g0140800	AK065683.1	-	Protein kinase domain containing protein	4e-4	At5g26150	protein kinase family protein	O.I.	H.G.	S.X.
0.12	7.2	0.89	Os12g0605800	AK121511.1	-	Methylcrotonyl-CoA carboxylase alpha chain,mitochondrial precursor (EC 6.4.1.4)(3-Methylcrotonyl-CoA carboxylase 1) (MCCase alphasubunit) (3-methylcrotonyl-CoA:carbon dioxide ligasealpha subunit)	2e-15	At1g03090	MCCA	O.I.	H.G.	S.X.
0.12	7.2	0.92	Os08g0518100	AK066731.1	-	RabGAP/TBC domain containing protein	2e-3	At2g19240	RabGAP/TBC domain-containing protein	O.I.	H.G.	S.X.
0.12	7.2	0.88	Os10g0516300	CB620164	-	Electron transfer flavoprotein-ubiquinoneoxidoreductase, mitochondrial precursor (EC 1.5.5.1)(ETF-QO) (ETF-ubiquinone oxidoreductase) (ETFdehydrogenase) (Electron-transferring- flavoproteindehydrogenase). Splice isoform 2	8e-17	At2g43400	ETFQO (electron-transfer flavoprotein:ubiquinone oxidoreductase)	O.I.	H.G.	S.X.
0.10	5.7	0.92	Os08g0431100	AK070049.1	-	-	2e-2	At5g55600	agenet domain-containing protein / bromo-adjacent homology (BAH) domain-containing protein	O.I.	H.G.	S.X.
0.10	5.7	0.91	Os05g0144100	AK069280.1	-	-	6e-10	At4g03020	transducin family protein / WD-40 repeat family protein	O.I.	H.G.	S.X.
0.10	5.7	0.91	Os02g0564000	AK073086.1	-	Glutathione S-transferase	5e-1	At5g59850	40S ribosomal protein S15A (RPS15aF)	O.I.	H.G.	S.X.
0.10	5.7	0.93	Os06g0199200	AK066664.1	-	Smr protein/MutS2 C-terminal domain containingprotein	2e-2	At5g37760	DNAJ heat shock N-terminal domain-containing protein	O.I.	H.G.	S.X.
0.08	4.2	0.90	Os10g0572700	AK100907.1	-	Conserved hypothetical protein	3e-13	At2g30660	3-hydroxyisobutyryl-coenzyme A hydrolase, putative / CoA-thioester hydrolase, putative	O.I.	H.G.	S.X.
0.07	3.7	0.92	Os07g0616900	AK071047.1	-	Protein of unknown function DUF500 family protein	2e-8	At3g43230	zinc finger (FYVE type) family protein	O.I.	H.G.	S.X.
0.07	3.7	0.94	Os03g0206900	AK108941.1	-	Zn-finger, RING domain containing protein	8e+0	At5g50680	SAE1B (SUMO ACTIVATING ENZYME 1B)	O.I.	H.G.	S.X.
0.06	3.0	0.90	Os04g0668700	AK062068.1	-	Phosphatidylinositol 3- and 4-kinase domaincontaining protein	6e-6	At1g13640	phosphatidylinositol 3- and 4-kinase family protein	O.I.	H.G.	S.X.
0.06	3.0	0.87	Os03g0429800	AK065099.1	-	Xanthine dehydrogenase 1 (EC 1.1.1.204)	8e-22	At4g34890	XDH1 (XANTHINE DEHYDROGENASE 1)	O.I.	H.G.	S.X.
0.04	2.0	0.90	Os11g0296500	AK069633.1	-	Zn-finger, CCHC type domain containing protein	2e+0	At5g43430	ETFBETA	O.I.	H.G.	S.X.
0.04	2.0	0.89	Os03g0847600	AK066947.1	-	GAMYB-binding protein	8e-14	At4g13020	MHK	O.I.	H.G.	S.X.
0.03	1.4	0.91	Os02g0777100	AK100528.1	-	DENN domain containing protein	5e+0	At5g53850	haloacid dehalogenase-like hydrolase family protein	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
16.9 98.8 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
10.8 98.1 GSM422674 Musa_DNA_RICE GSE16865 Heterologous microarrays for the study of drought stress in Musa
9.9 98.0 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
8.0 97.6 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.9 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
7.9 97.6 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7 97.6 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.1 97.4 GSM195224 Suspension cell GSE7951 Genome-wide gene expression profiling of rice stigma
7.1 97.4 GSM377080 Genomic DNA - 45 day old leaf sample - mutant g6728 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.9 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

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
16.9	98.8	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
10.8	98.1	GSM422674	Musa_DNA_RICE	GSE16865	Heterologous microarrays for the study of drought stress in Musa
9.9	98.0	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
8.0	97.6	GSM377071	Genomic DNA - 45 day old leaf sample - mutant d256	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.9	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
7.9	97.6	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.7	97.6	GSM377076	Genomic DNA - 45 day old leaf sample - mutant g6485	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.1	97.4	GSM195224	Suspension cell	GSE7951	Genome-wide gene expression profiling of rice stigma
7.1	97.4	GSM377080	Genomic DNA - 45 day old leaf sample - mutant g6728	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.9	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

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.063 1 GO:0009072 The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
0.054 1 GO:0015976
0.050 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.

SF	Genes	GO ID	Process Name
0.063	1	GO:0009072	The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
0.054	1	GO:0015976
0.050	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.

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	Os01g0719100
Gene name
Homology with Arabidopsis	Similar to At5g25560: zinc finger (C3HC4-type RING finger) family protein (HF=3e-11)
Module size	29 genes
NF	0.11
%ile	8.5

Co-expression analysis

Gene ID Os01g0719100 Gene name Homology with ArabidopsisSimilar to At5g25560: zinc finger (C3HC4-type RING finger) family protein (HF=3e-11) Module size 29 genes NF 0.11 %ile 8.5

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 Os01g0719100

Gene name
Homology with Arabidopsis Similar to At5g25560: zinc finger (C3HC4-type RING finger) family protein (HF=3e-11)

Module size 29 genes

NF 0.11

%ile 8.5

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