CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os01g0278900

Gene name
Homology with Arabidopsis Similar to At3g56910: PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5) (HF=3e-7)

Module size 6 genes

NF 0.79

%ile 98.0

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 0.98 Os01g0278900 AK120429.1 - Hypothetical protein 3e-7 At3g56910 PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5) O.I. H.G. S.X.
0.83 95.8 0.98 Os01g0678600 AK120629.1 - Ribosomal protein S20 family protein 1e-1 At4g30460 glycine-rich protein O.I. H.G. S.X.
0.73 91.1 0.98 Os02g0822600 AK060728.1 - 50S ribosomal protein L9, chloroplast precursor(CL13) 2e+0 At3g44890 RPL9 (RIBOSOMAL PROTEIN L9) O.I. H.G. S.X.
0.67 87.2 0.98 Os03g0219900 AK066527.1 - 50S ribosomal protein L15, chloroplast precursor(CL15) (Fragment) 5e-1 At3g25920 RPL15 O.I. H.G. S.X.
0.67 87.2 0.98 Os01g0749200 AK104146.1 - 50S ribosomal protein L13 1e-20 At1g78630 emb1473 (embryo defective 1473) O.I. H.G. S.X.
0.63 82.7 0.97 Os03g0843400 AK061198.1 - 30S ribosomal protein S6, chloroplast precursor(Fragment) 3e-2 At1g64510 ribosomal protein S6 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.
0.91	98.9	0.98	Os01g0278900	AK120429.1	-	Hypothetical protein	3e-7	At3g56910	PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5)	O.I.	H.G.	S.X.
0.83	95.8	0.98	Os01g0678600	AK120629.1	-	Ribosomal protein S20 family protein	1e-1	At4g30460	glycine-rich protein	O.I.	H.G.	S.X.
0.73	91.1	0.98	Os02g0822600	AK060728.1	-	50S ribosomal protein L9, chloroplast precursor(CL13)	2e+0	At3g44890	RPL9 (RIBOSOMAL PROTEIN L9)	O.I.	H.G.	S.X.
0.67	87.2	0.98	Os03g0219900	AK066527.1	-	50S ribosomal protein L15, chloroplast precursor(CL15) (Fragment)	5e-1	At3g25920	RPL15	O.I.	H.G.	S.X.
0.67	87.2	0.98	Os01g0749200	AK104146.1	-	50S ribosomal protein L13	1e-20	At1g78630	emb1473 (embryo defective 1473)	O.I.	H.G.	S.X.
0.63	82.7	0.97	Os03g0843400	AK061198.1	-	30S ribosomal protein S6, chloroplast precursor(Fragment)	3e-2	At1g64510	ribosomal protein S6 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.
0.92	99.1	0.97	Os04g0461100	AK068022.1	-	Plastid and cyanobacterial ribosomal proteinPSRP-3/Ycf65 family protein	8e-12	At1g68590	plastid-specific 30S ribosomal protein 3, putative / PSRP-3, putative	O.I.	H.G.	S.X.
0.80	94.6	0.97	Os05g0337400	AU198228	-	Heavy metal transport/detoxification proteindomain containing protein	6e+0	At5g64150	methylase family protein	O.I.	H.G.	S.X.
0.80	94.6	0.97	Os03g0815400	AK067057.1	-	Ribosomal protein L17 family protein	1e-4	At3g54210	ribosomal protein L17 family protein	O.I.	H.G.	S.X.
0.73	91.1	0.97	Os03g0315800	AK061971.1	-	30S ribosomal protein S1, chloroplast precursor(CS1)	9e-53	At5g30510	RPS1 (RIBOSOMAL PROTEIN S1)	O.I.	H.G.	S.X.
0.73	91.1	0.98	Os02g0259600	AK062182.1	-	50S ribosomal protein L21, chloroplast precursor(CL21) (CS-L7)	2e-3	At1g35680	50S ribosomal protein L21, chloroplast / CL21 (RPL21)	O.I.	H.G.	S.X.
0.71	89.6	0.96	Os03g0178200	AK106221.1	-	Protein of unknown function YGGT family protein	6e-7	At5g21920	YGGT family protein	O.I.	H.G.	S.X.
0.71	89.6	0.96	Os02g0328300	AK068505.1	-	Fruit protein PKIWI502	3e+0	At1g12665	-	O.I.	H.G.	S.X.
0.60	79.7	0.94	Os01g0894700	NM_190253.1	-	Hypothetical protein	8e+0	Atmg00640	-	O.I.	H.G.	S.X.
0.57	77.0	0.95	Os10g0502000	AK099827.1	-	Thylakoid lumenal 17.4 kDa protein, chloroplastprecursor (P17.4)	3e-18	At5g53490	thylakoid lumenal 17.4 kDa protein, chloroplast	O.I.	H.G.	S.X.
0.57	77.0	0.95	Os02g0192700	AK061629.1	-	Thioredoxin peroxidase	1e-1	At3g52960	peroxiredoxin type 2, putative	O.I.	H.G.	S.X.
0.57	77.0	0.96	Os03g0125000	AK070779.1	-	-	2e-3	At4g01310	ribosomal protein L5 family protein	O.I.	H.G.	S.X.
0.57	77.0	0.97	Os05g0186000	AK058675.1	-	-	1e+0	At1g15220	CCMH	O.I.	H.G.	S.X.
0.55	73.7	0.98	Os06g0332800	AK060439.1	-	Bundle sheath defective protein 2	1e-1	At3g47650	bundle-sheath defective protein 2 family / bsd2 family	O.I.	H.G.	S.X.
0.53	71.3	0.96	Os05g0101400	AK067481.1	-	-	3e-2	At3g29075	glycine-rich protein	O.I.	H.G.	S.X.
0.53	71.3	0.98	Os03g0704000	CR281175	-	30S ribosomal protein S13, chloroplast precursor(CS13)	1e-1	At5g14320	30S ribosomal protein S13, chloroplast (CS13)	O.I.	H.G.	S.X.
0.53	71.3	0.97	Os03g0769100	AB022675.1	-	9S ribosomal protein	5e-1	At1g74970	RPS9 (RIBOSOMAL PROTEIN S9)	O.I.	H.G.	S.X.
0.50	68.0	0.96	Os06g0683200	AK060024.1	-	50S ribosomal protein L24, chloroplast precursor(CL24)	3e-2	At5g54600	50S ribosomal protein L24, chloroplast (CL24)	O.I.	H.G.	S.X.
0.50	68.0	0.97	Os03g0122200	AB042934.1	-	50S ribosomal protein L11	3e-2	At1g32990	PRPL11 (PLASTID RIBOSOMAL PROTEIN L11)	O.I.	H.G.	S.X.
0.50	68.0	0.98	Os03g0284400	AF095709.1	-	Ribosomal protein L10-like	2e+0	At5g43150	unknown protein	O.I.	H.G.	S.X.
0.47	62.3	0.97	Os02g0754300	AK068621.1	-	-	9e-1	At4g10465	metal ion binding	O.I.	H.G.	S.X.
0.44	58.1	0.96	Os03g0452300	AK065820.1	-	30S ribosomal protein S5	2e-4	At2g33800	ribosomal protein S5 family protein	O.I.	H.G.	S.X.
0.44	58.1	0.97	Os01g0805000	AU088672	-	50S ribosomal protein L34	3e-1	At3g42310	unknown protein	O.I.	H.G.	S.X.
0.42	53.9	0.97	Os02g0137200	AK060290.1	-	50S ribosomal protein L3-1, chloroplast precursor	2e-6	At2g43030	ribosomal protein L3 family protein	O.I.	H.G.	S.X.
0.40	51.1	0.93	Os12g0534200	AK120370.1	-	Acyl carrier protein I, chloroplast precursor (ACPI)	2e-6	At1g54580	ACP2 (ACYL CARRIER PROTEIN 2)	O.I.	H.G.	S.X.
0.40	51.1	0.95	Os03g0265400	AK120527.1	-	50S ribosomal protein L4, chloroplast precursor(R-protein L4)	4e-2	At4g27150	2S seed storage protein 2 / 2S albumin storage protein / NWMU2-2S albumin 2	O.I.	H.G.	S.X.
0.40	51.1	0.96	Os03g0828100	AK059132.1	-	50S ribosomal protein L18	1e-13	At1g48350	ribosomal protein L18 family protein	O.I.	H.G.	S.X.
0.40	51.1	0.96	Os03g0121700	AK059982.1	-	-	2e-6	At3g49470	NACA2 (NASCENT POLYPEPTIDE-ASSOCIATED COMPLEX SUBUNIT ALPHA-LIKE PROTEIN 2)	O.I.	H.G.	S.X.
0.38	46.9	0.96	Os01g0924000	AK120797.1	-	Chloroplast 50S ribosomal protein L27 (Fragment)	6e-2	At5g40950	RPL27 (RIBOSOMAL PROTEIN LARGE SUBUNIT 27)	O.I.	H.G.	S.X.
0.37	45.0	0.94	Os03g0611200	AK065587.1	-	Aldo/keto reductase family protein	6e-17	At1g04420	aldo/keto reductase family protein	O.I.	H.G.	S.X.
0.37	45.0	0.96	Os03g0356300	AK061469.1	-	Ribosomal protein L6 family protein	4e-17	At1g05190	emb2394 (embryo defective 2394)	O.I.	H.G.	S.X.
0.36	44.0	0.96	Os01g0662300	AF010581.1	-	Chloroplast 50S ribosomal protein L12	1e+0	At5g65140	trehalose-6-phosphate phosphatase, putative	O.I.	H.G.	S.X.
0.35	41.7	0.96	Os03g0811100	AK072463.1	-	Magnesium-chelatase subunit chlD, chloroplastprecursor (EC 6.6.1.1) (Mg-protoporphyrin IX chelatase)(Mg-chelatase subunit D)	1e-25	At1g08520	CHLD	O.I.	H.G.	S.X.
0.35	41.7	0.91	Os02g0762100	AK068833.1	-	Regulator of ribonuclease-like protein 2	6e-2	At3g02770	dimethylmenaquinone methyltransferase family protein	O.I.	H.G.	S.X.
0.35	41.7	0.95	Os12g0541500	AK067367.1	-	Elongation factor Ts (EF-Ts)	1e-10	At4g29060	emb2726 (embryo defective 2726)	O.I.	H.G.	S.X.
0.33	38.8	0.91	Os11g0550800	AK066323.1	-	Conserved hypothetical protein	4e+0	At4g39880	ribosomal protein L23 family protein	O.I.	H.G.	S.X.
0.32	36.3	0.95	Os01g0958100	AK058574.1	-	Cell division transporter substrate-bindingprotein FtsY family protein	8e-16	At2g45770	CPFTSY	O.I.	H.G.	S.X.
0.32	36.3	0.96	Os02g0537700	AK068919.1	-	2-cys peroxiredoxin BAS1, chloroplast precursor(Thiol-specific antioxidant protein) (Fragment)	2e-71	At3g11630	2-cys peroxiredoxin, chloroplast (BAS1)	O.I.	H.G.	S.X.
0.30	32.7	0.95	Os05g0103200	AK061557.1	-	Peptidyl-prolyl cis-trans isomerase TLP20,chloroplast precursor (EC 5.2.1.8) (PPIase) (Rotamase)(Thylakoid lumen PPIase of 20 kDa)	2e-28	At5g13120	peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein	O.I.	H.G.	S.X.
0.29	31.1	0.92	Os03g0751400	AK069033.1	-	50S ribosomal protein l6	3e-53	At5g20570	RBX1 (RING-BOX 1)	O.I.	H.G.	S.X.
0.29	31.1	0.95	Os02g0255700	AK060468.1	-	Hypothetical protein	7e-18	At4g28080	binding	O.I.	H.G.	S.X.
0.28	31.1	0.92	Os07g0520800	AK062845.1	-	Ankyrin repeat containing protein	2e-6	At1g50900	-	O.I.	H.G.	S.X.
0.28	31.1	0.93	Os07g0565600	AK071983.1	-	Peptidyl-prolyl cis-trans isomerase, cyclophilintype domain containing protein	8e-7	At3g15520	peptidyl-prolyl cis-trans isomerase TLP38, chloroplast / thylakoid lumen PPIase of 38 kDa / cyclophilin / rotamase	O.I.	H.G.	S.X.
0.27	27.5	0.96	Os07g0570700	AK065242.1	-	Ribosome recycling factor, chloroplast precursor(Ribosome releasing factor, chloroplast) (RRF) (CpFrr)(RRFHCP)	7e-13	At3g63190	RRF (RIBOSOME RECYCLING FACTOR, CHLOROPLAST PRECURSOR)	O.I.	H.G.	S.X.
0.26	25.6	0.93	Os03g0781000	AK065910.1	-	Conserved hypothetical protein 92 family protein	5e-12	At1g56050	GTP-binding protein-related	O.I.	H.G.	S.X.
0.26	25.6	0.94	Os04g0626400	AK059851.1	-	Calycin family protein	7e-16	At3g47860	apolipoprotein D-related	O.I.	H.G.	S.X.
0.26	25.6	0.94	Os03g0414400	AK059068.1	-	Conserved hypothetical protein	2e-2	At3g16020	phospholipase C	O.I.	H.G.	S.X.
0.26	25.6	0.95	Os01g0510600	AK072814.1	-	TPR-like domain containing protein	1e-2	At3g14110	FLU (FLUORESCENT IN BLUE LIGHT)	O.I.	H.G.	S.X.
0.26	25.6	0.93	Os10g0395200	CA754098	-	Conserved hypothetical protein	5e+0	At5g19570	unknown protein	O.I.	H.G.	S.X.
0.25	24.1	0.96	Os03g0337600	AK070859.1	-	Uroporphyrinogen decarboxylase (EC 4.1.1.37)(URO-D) (UPD) (Fragment)	3e-19	At2g40490	HEME2	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
9.2 97.9 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
8.3 97.7 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.5 97.5 GSM377072 Genomic DNA - 45 day old leaf sample - mutant d1137 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.2 97.4 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.0 97.4 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3 97.2 GSM422674 Musa_DNA_RICE GSE16865 Heterologous microarrays for the study of drought stress in Musa
6.3 97.2 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.1 97.1 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.0 97.0 GSM377078 Genomic DNA - 45 day old leaf sample - mutant g6603 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
5.7 96.9 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 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
9.2	97.9	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
8.3	97.7	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.5	97.5	GSM377072	Genomic DNA - 45 day old leaf sample - mutant d1137	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.2	97.4	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
7.0	97.4	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.3	97.2	GSM422674	Musa_DNA_RICE	GSE16865	Heterologous microarrays for the study of drought stress in Musa
6.3	97.2	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.1	97.1	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
6.0	97.0	GSM377078	Genomic DNA - 45 day old leaf sample - mutant g6603	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
5.7	96.9	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	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

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	Os01g0278900
Gene name
Homology with Arabidopsis	Similar to At3g56910: PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5) (HF=3e-7)
Module size	6 genes
NF	0.79
%ile	98.0

Co-expression analysis

Gene ID Os01g0278900 Gene name Homology with ArabidopsisSimilar to At3g56910: PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5) (HF=3e-7) Module size 6 genes NF 0.79 %ile 98.0

Co-expressed genes

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Arabidopsis_thalianaGlycine_maxHordeum_vulgarePopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID Os01g0278900

Gene name
Homology with Arabidopsis Similar to At3g56910: PSRP5 (PLASTID-SPECIFIC 50S RIBOSOMAL PROTEIN 5) (HF=3e-7)

Module size 6 genes

NF 0.79

%ile 98.0

SF Genes GO ID Process Name Link to AmiGO

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