CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os04g0254200

Gene name
Homology with Arabidopsis Similar to At4g33660: unknown protein (HF=4e+0)

Module size 37 genes

NF 0.34

%ile 37.7

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
0.97 99.9 0.92 Os04g0254200 9632.m01640 - - 4e+0 At4g33660 unknown protein O.I. H.G. S.X.
0.45 58.8 0.97 Os06g0476400 9634.m02694 - - 3e+0 At5g14920 gibberellin-regulated family protein O.I. H.G. S.X.
0.44 58.1 0.96 Os07g0643500 AK111373.1 - Conserved hypothetical protein 4e-2 At5g06570 hydrolase O.I. H.G. S.X.
0.42 53.9 0.98 Os10g0127325 9638.m00287 - - 4e+0 At3g49270 unknown protein O.I. H.G. S.X.
0.42 53.9 0.98 Os05g0187700 9633.m00865 - - 3e-1 At5g67450 AZF1 (ARABIDOPSIS ZINC-FINGER PROTEIN 1) O.I. H.G. S.X.
0.42 53.9 0.97 Os07g0418400 9635.m02244 - - 3e+0 At4g28460 unknown protein O.I. H.G. S.X.
0.41 52.4 0.97 Os07g0447100 9635.m02558 - - 4e+0 At4g31580 SRZ-22 O.I. H.G. S.X.
0.41 52.4 0.98 Os02g0766300 9636.m01563 - - 2e+0 At1g12665 - O.I. H.G. S.X.
0.40 51.1 0.98 Os01g0534100 9629.m03289 - - 3e-1 At4g29020 glycine-rich protein O.I. H.G. S.X.
0.40 51.1 0.98 Os11g0490500 9639.m02697 - - 1e+0 At5g09750 HEC3 (HECATE 3) O.I. H.G. S.X.
0.40 51.1 0.96 Os03g0651601 9631.m04340 - - 3e+0 At5g60615 - O.I. H.G. S.X.
0.39 48.3 0.98 Os09g0524300 9637.m02984 - Multi antimicrobial extrusion protein MatE familyprotein 5e-5 At5g49130 MATE efflux family protein O.I. H.G. S.X.
0.38 46.9 0.97 Os04g0298300 9632.m02145 - - 1e+1 At3g18280 protease inhibitor/seed storage/lipid transfer protein (LTP) family protein O.I. H.G. S.X.
0.37 45.0 0.98 Os04g0392800 9632.m03070 - - 6e-2 At4g16700 PSD1 (phosphatidylserine decarboxylase 1) O.I. H.G. S.X.
0.37 45.0 0.99 Os03g0823600 9631.m05996 - - 3e-1 At1g06850 AtbZIP52 (Arabidopsis thaliana basic leucine zipper 52) O.I. H.G. S.X.
0.36 44.0 0.97 Os01g0256100 NM_187909.1 - - 4e+0 At4g27810 unknown protein O.I. H.G. S.X.
0.35 41.7 0.98 Os01g0760500 NM_191326.1 - - 2e-1 At3g23175 lesion inducing protein-related O.I. H.G. S.X.
0.34 40.0 0.97 Os08g0208300 9636.m01037 - Hypothetical protein 3e+0 At1g32220 binding / catalytic/ coenzyme binding O.I. H.G. S.X.
0.34 40.0 0.97 Os02g0607900 9630.m03800 - - 1e+1 At5g65925 unknown protein O.I. H.G. S.X.
0.34 40.0 0.95 Os05g0183400 9633.m00813 - - 2e+0 At2g22470 AGP2 (ARABINOGALACTAN PROTEIN 2) O.I. H.G. S.X.
0.34 40.0 0.97 Os05g0461200 9633.m03587 - - 1e-1 At5g35620 LSP1 (LOSS OF SUSCEPTIBILITY TO POTYVIRUS 1) O.I. H.G. S.X.
0.33 38.8 0.97 Os07g0303000 9635.m02057 - - 1e+0 At3g14000 ATBRXL2 O.I. H.G. S.X.
0.33 38.8 0.97 Os03g0122100 9631.m00211 - - 3e-2 At1g01100 60S acidic ribosomal protein P1 (RPP1A) O.I. H.G. S.X.
0.32 36.3 0.99 Os12g0451400 9640.m02543 - Hypothetical protein 5e-3 At4g30460 glycine-rich protein O.I. H.G. S.X.
0.32 36.3 0.97 Os02g0652500 9630.m04197 - - 5e-1 At4g09840 unknown protein O.I. H.G. S.X.
0.31 34.5 0.95 Os07g0496400 9635.m03078 - - 2e+1 At5g51720 unknown protein O.I. H.G. S.X.
0.29 31.1 0.96 Os01g0372600 NM_193853.1 - - 2e+0 At2g20760 protein binding / structural molecule O.I. H.G. S.X.
0.29 31.1 0.98 Os10g0376700 NM_196159.1 - - 9e-2 At3g59400 GUN4 O.I. H.G. S.X.
0.28 31.1 0.98 Os02g0522600 9630.m03055 - - 4e+0 At3g55120 TT5 (TRANSPARENT TESTA 5) O.I. H.G. S.X.
0.28 31.1 0.98 Os12g0446800 9640.m02494 - - 1e+0 At4g38660 thaumatin, putative O.I. H.G. S.X.
0.27 27.5 0.97 Os01g0741300 NM_191145.1 - - 5e-5 At5g43370 APT1 (ARABIDOPSIS PHOSPHATE TRANSPORTER 1) O.I. H.G. S.X.
0.26 25.6 0.96 Os04g0383800 9632.m02994 - - 4e+0 At5g14680 universal stress protein (USP) family protein O.I. H.G. S.X.
0.24 22.4 0.93 Os07g0451900 NM_187135.1 - - 1e-2 At5g44570 unknown protein O.I. H.G. S.X.
0.24 22.4 0.98 Os01g0369800 9631.m03785 - - 7e+0 At2g46540 unknown protein O.I. H.G. S.X.
0.22 19.4 0.96 Os04g0307300 9632.m02257 - - 2e-1 At5g25220 KNAT3 (KNOTTED1-LIKE HOMEOBOX GENE 3) O.I. H.G. S.X.
0.20 16.5 0.98 Os01g0246350 9629.m01418 - - 4e+0 At5g56060 ATP binding / nucleotide binding / phenylalanine-tRNA ligase O.I. H.G. S.X.
0.19 15.1 0.98 Os12g0258300 9640.m01518 - - 7e+0 At4g29240 leucine-rich repeat family protein / extensin 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	0.92	Os04g0254200	9632.m01640	-	-	4e+0	At4g33660	unknown protein	O.I.	H.G.	S.X.
0.45	58.8	0.97	Os06g0476400	9634.m02694	-	-	3e+0	At5g14920	gibberellin-regulated family protein	O.I.	H.G.	S.X.
0.44	58.1	0.96	Os07g0643500	AK111373.1	-	Conserved hypothetical protein	4e-2	At5g06570	hydrolase	O.I.	H.G.	S.X.
0.42	53.9	0.98	Os10g0127325	9638.m00287	-	-	4e+0	At3g49270	unknown protein	O.I.	H.G.	S.X.
0.42	53.9	0.98	Os05g0187700	9633.m00865	-	-	3e-1	At5g67450	AZF1 (ARABIDOPSIS ZINC-FINGER PROTEIN 1)	O.I.	H.G.	S.X.
0.42	53.9	0.97	Os07g0418400	9635.m02244	-	-	3e+0	At4g28460	unknown protein	O.I.	H.G.	S.X.
0.41	52.4	0.97	Os07g0447100	9635.m02558	-	-	4e+0	At4g31580	SRZ-22	O.I.	H.G.	S.X.
0.41	52.4	0.98	Os02g0766300	9636.m01563	-	-	2e+0	At1g12665	-	O.I.	H.G.	S.X.
0.40	51.1	0.98	Os01g0534100	9629.m03289	-	-	3e-1	At4g29020	glycine-rich protein	O.I.	H.G.	S.X.
0.40	51.1	0.98	Os11g0490500	9639.m02697	-	-	1e+0	At5g09750	HEC3 (HECATE 3)	O.I.	H.G.	S.X.
0.40	51.1	0.96	Os03g0651601	9631.m04340	-	-	3e+0	At5g60615	-	O.I.	H.G.	S.X.
0.39	48.3	0.98	Os09g0524300	9637.m02984	-	Multi antimicrobial extrusion protein MatE familyprotein	5e-5	At5g49130	MATE efflux family protein	O.I.	H.G.	S.X.
0.38	46.9	0.97	Os04g0298300	9632.m02145	-	-	1e+1	At3g18280	protease inhibitor/seed storage/lipid transfer protein (LTP) family protein	O.I.	H.G.	S.X.
0.37	45.0	0.98	Os04g0392800	9632.m03070	-	-	6e-2	At4g16700	PSD1 (phosphatidylserine decarboxylase 1)	O.I.	H.G.	S.X.
0.37	45.0	0.99	Os03g0823600	9631.m05996	-	-	3e-1	At1g06850	AtbZIP52 (Arabidopsis thaliana basic leucine zipper 52)	O.I.	H.G.	S.X.
0.36	44.0	0.97	Os01g0256100	NM_187909.1	-	-	4e+0	At4g27810	unknown protein	O.I.	H.G.	S.X.
0.35	41.7	0.98	Os01g0760500	NM_191326.1	-	-	2e-1	At3g23175	lesion inducing protein-related	O.I.	H.G.	S.X.
0.34	40.0	0.97	Os08g0208300	9636.m01037	-	Hypothetical protein	3e+0	At1g32220	binding / catalytic/ coenzyme binding	O.I.	H.G.	S.X.
0.34	40.0	0.97	Os02g0607900	9630.m03800	-	-	1e+1	At5g65925	unknown protein	O.I.	H.G.	S.X.
0.34	40.0	0.95	Os05g0183400	9633.m00813	-	-	2e+0	At2g22470	AGP2 (ARABINOGALACTAN PROTEIN 2)	O.I.	H.G.	S.X.
0.34	40.0	0.97	Os05g0461200	9633.m03587	-	-	1e-1	At5g35620	LSP1 (LOSS OF SUSCEPTIBILITY TO POTYVIRUS 1)	O.I.	H.G.	S.X.
0.33	38.8	0.97	Os07g0303000	9635.m02057	-	-	1e+0	At3g14000	ATBRXL2	O.I.	H.G.	S.X.
0.33	38.8	0.97	Os03g0122100	9631.m00211	-	-	3e-2	At1g01100	60S acidic ribosomal protein P1 (RPP1A)	O.I.	H.G.	S.X.
0.32	36.3	0.99	Os12g0451400	9640.m02543	-	Hypothetical protein	5e-3	At4g30460	glycine-rich protein	O.I.	H.G.	S.X.
0.32	36.3	0.97	Os02g0652500	9630.m04197	-	-	5e-1	At4g09840	unknown protein	O.I.	H.G.	S.X.
0.31	34.5	0.95	Os07g0496400	9635.m03078	-	-	2e+1	At5g51720	unknown protein	O.I.	H.G.	S.X.
0.29	31.1	0.96	Os01g0372600	NM_193853.1	-	-	2e+0	At2g20760	protein binding / structural molecule	O.I.	H.G.	S.X.
0.29	31.1	0.98	Os10g0376700	NM_196159.1	-	-	9e-2	At3g59400	GUN4	O.I.	H.G.	S.X.
0.28	31.1	0.98	Os02g0522600	9630.m03055	-	-	4e+0	At3g55120	TT5 (TRANSPARENT TESTA 5)	O.I.	H.G.	S.X.
0.28	31.1	0.98	Os12g0446800	9640.m02494	-	-	1e+0	At4g38660	thaumatin, putative	O.I.	H.G.	S.X.
0.27	27.5	0.97	Os01g0741300	NM_191145.1	-	-	5e-5	At5g43370	APT1 (ARABIDOPSIS PHOSPHATE TRANSPORTER 1)	O.I.	H.G.	S.X.
0.26	25.6	0.96	Os04g0383800	9632.m02994	-	-	4e+0	At5g14680	universal stress protein (USP) family protein	O.I.	H.G.	S.X.
0.24	22.4	0.93	Os07g0451900	NM_187135.1	-	-	1e-2	At5g44570	unknown protein	O.I.	H.G.	S.X.
0.24	22.4	0.98	Os01g0369800	9631.m03785	-	-	7e+0	At2g46540	unknown protein	O.I.	H.G.	S.X.
0.22	19.4	0.96	Os04g0307300	9632.m02257	-	-	2e-1	At5g25220	KNAT3 (KNOTTED1-LIKE HOMEOBOX GENE 3)	O.I.	H.G.	S.X.
0.20	16.5	0.98	Os01g0246350	9629.m01418	-	-	4e+0	At5g56060	ATP binding / nucleotide binding / phenylalanine-tRNA ligase	O.I.	H.G.	S.X.
0.19	15.1	0.98	Os12g0258300	9640.m01518	-	-	7e+0	At4g29240	leucine-rich repeat family protein / extensin 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
24.5 99.4 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
23.5 99.4 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
14.9 98.6 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
14.3 98.6 GSM377082 Genomic DNA - 45 day old leaf sample - mutant g9799 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.9 98.5 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2 98.4 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2 98.4 GSM377078 Genomic DNA - 45 day old leaf sample - mutant g6603 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.7 98.4 GSM377080 Genomic DNA - 45 day old leaf sample - mutant g6728 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.0 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
11.9 98.3 GSM377074 Genomic DNA - 45 day old leaf sample - mutant g282 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
24.5	99.4	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
23.5	99.4	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
14.9	98.6	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
14.3	98.6	GSM377082	Genomic DNA - 45 day old leaf sample - mutant g9799	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.9	98.5	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2	98.4	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
13.2	98.4	GSM377078	Genomic DNA - 45 day old leaf sample - mutant g6603	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.7	98.4	GSM377080	Genomic DNA - 45 day old leaf sample - mutant g6728	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.0	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
11.9	98.3	GSM377074	Genomic DNA - 45 day old leaf sample - mutant g282	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
0.011 1 GO:0045449 Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.011	1	GO:0045449	Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

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	Os04g0254200
Gene name
Homology with Arabidopsis	Similar to At4g33660: unknown protein (HF=4e+0)
Module size	37 genes
NF	0.34
%ile	37.7

Co-expression analysis

Gene ID Os04g0254200 Gene name Homology with ArabidopsisSimilar to At4g33660: unknown protein (HF=4e+0) Module size 37 genes NF 0.34 %ile 37.7

Co-expressed genes

Click More genes

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO0.0111GO:0045449Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

Inter-species module comparison

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

Gene ID Os04g0254200

Gene name
Homology with Arabidopsis Similar to At4g33660: unknown protein (HF=4e+0)

Module size 37 genes

NF 0.34

%ile 37.7

SF Genes GO ID Process Name Link to AmiGO
0.011 1 GO:0045449 Any process that modulates the frequency, rate or extent of the synthesis of either RNA on a template of DNA or DNA on a template of RNA.

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