CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os02g0126400

Gene name
Homology with Arabidopsis Similar to At2g17890: CPK16 (HF=6e-30)

Module size 6 genes

NF 0.67

%ile 90.0

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 0.92 Os02g0126400 AF194413.1 - Protein kinase CPK1 6e-30 At2g17890 CPK16 O.I. H.G. S.X.
0.77 93.1 0.91 Os10g0580900 AK072734.1 - Conserved hypothetical protein 5e-8 At4g25030 unknown protein O.I. H.G. S.X.
0.57 77.0 0.90 Os02g0437200 AK065640.1 - SNAP-34 1e+0 At1g68760 ATNUDX1 (ARABIDOPSIS THALIANA NUDIX HYDROLASE 1) O.I. H.G. S.X.
0.50 68.0 0.90 Os02g0205500 AK067907.1 - Naringenin-chalcone synthase family protein 7e-5 At5g43760 KCS20 (3-KETOACYL-COA SYNTHASE 20) O.I. H.G. S.X.
0.50 68.0 0.92 Os03g0241300 AK072703.1 - Hypothetical protein 1e+0 At3g49010 ATBBC1 (ARABIDOPSIS THALIANA BREAST BASIC CONSERVED 1) O.I. H.G. S.X.
0.44 58.1 0.95 Os01g0908700 AK120427.1 - Heterogeneous nuclear ribonucleoprotein A2 homolog1 (hnRNP A2(A)) 2e-17 At1g67800 copine-related 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	Os02g0126400	AF194413.1	-	Protein kinase CPK1	6e-30	At2g17890	CPK16	O.I.	H.G.	S.X.
0.77	93.1	0.91	Os10g0580900	AK072734.1	-	Conserved hypothetical protein	5e-8	At4g25030	unknown protein	O.I.	H.G.	S.X.
0.57	77.0	0.90	Os02g0437200	AK065640.1	-	SNAP-34	1e+0	At1g68760	ATNUDX1 (ARABIDOPSIS THALIANA NUDIX HYDROLASE 1)	O.I.	H.G.	S.X.
0.50	68.0	0.90	Os02g0205500	AK067907.1	-	Naringenin-chalcone synthase family protein	7e-5	At5g43760	KCS20 (3-KETOACYL-COA SYNTHASE 20)	O.I.	H.G.	S.X.
0.50	68.0	0.92	Os03g0241300	AK072703.1	-	Hypothetical protein	1e+0	At3g49010	ATBBC1 (ARABIDOPSIS THALIANA BREAST BASIC CONSERVED 1)	O.I.	H.G.	S.X.
0.44	58.1	0.95	Os01g0908700	AK120427.1	-	Heterogeneous nuclear ribonucleoprotein A2 homolog1 (hnRNP A2(A))	2e-17	At1g67800	copine-related	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.
0.61	81.2	0.88	Os03g0659400	AK111930.1	-	Zn-finger, CCHC type domain containing protein	4e-1	At3g07880	Rho GDP-dissociation inhibitor family protein	O.I.	H.G.	S.X.
0.60	79.7	0.92	Os03g0285800	AF332873.1	-	MAP kinase 1 (MAP kinase MAPK5a)	8e-4	At2g43790	ATMPK6 (ARABIDOPSIS THALIANA MAP KINASE 6)	O.I.	H.G.	S.X.
0.56	76.3	0.85	Os06g0203600	AK121461.1	-	Conserved hypothetical protein	1e+0	At1g27680	APL2 (ADPGLC-PPASE LARGE SUBUNIT)	O.I.	H.G.	S.X.
0.53	71.3	0.87	Os01g0742400	AK109885.1	-	Protein kinase domain containing protein	1e-1	At3g19700	IKU2 (HAIKU2)	O.I.	H.G.	S.X.
0.50	68.0	0.83	Os06g0255900	AK073580.1	-	Exo70 exocyst complex subunit family protein	2e+0	At3g52800	zinc finger (AN1-like) family protein	O.I.	H.G.	S.X.
0.50	68.0	0.91	Os03g0402800	AK061842.1	-	ZIM domain containing protein	2e+0	At1g19180	JAZ1 (JASMONATE-ZIM-DOMAIN PROTEIN 1)	O.I.	H.G.	S.X.
0.46	60.9	0.83	Os02g0677300	AK106041.1	-	CRT/DRE binding factor 1	4e-2	At1g15360	SHN1 (SHINE 1)	O.I.	H.G.	S.X.
0.44	58.1	0.76	Os03g0183500	AK063042.1	-	Protein of unknown function DUF581 family protein	2e+0	At2g36854	unknown protein	O.I.	H.G.	S.X.
0.44	58.1	0.87	Os08g0205800	AK062655.1	-	Conserved hypothetical protein	2e+0	At5g48240	unknown protein	O.I.	H.G.	S.X.
0.40	51.1	0.84	Os01g0864500	AK068115.1	-	Harpin-induced 1 domain containing protein	8e+0	At5g47080	CKB1	O.I.	H.G.	S.X.
0.40	51.1	0.90	Os02g0165100	AK066645.1	-	Protein kinase domain containing protein	2e-4	At2g35620	FEI2 (FEI 2)	O.I.	H.G.	S.X.
0.40	51.1	0.92	Os05g0110000	AK067181.1	-	The start codon is not identified.	7e-1	At4g19270	unknown protein	O.I.	H.G.	S.X.
0.39	48.3	0.74	Os01g0389700	AK108444.1	-	Protein of unknown function DUF679 family protein	2e+0	At4g35500	protein kinase family protein	O.I.	H.G.	S.X.
0.37	45.0	0.87	Os04g0671200	AK106044.1	-	Flavin-containing amine oxidase family protein	1e+0	At2g43020	ATPAO2 (Polyamine oxidase 2)	O.I.	H.G.	S.X.
0.35	41.7	0.83	Os02g0759400	AY579411.1	-	Zn-finger, RING domain containing protein	7e-2	At5g41400	zinc finger (C3HC4-type RING finger) family protein	O.I.	H.G.	S.X.
0.35	41.7	0.89	Os02g0739100	AK072070.1	-	Actin-binding FH2 domain containing protein	2e+0	At4g01995	unknown protein	O.I.	H.G.	S.X.
0.33	38.8	0.84	Os06g0202900	AK109607.1	-	Avr9/Cf-9 rapidly elicited protein 264	5e-2	At1g69790	protein kinase, putative	O.I.	H.G.	S.X.
0.32	36.3	0.84	Os05g0540900	AK072284.1	-	-	4e-2	At1g04445	zinc finger (C2H2 type) family protein	O.I.	H.G.	S.X.
0.31	34.5	0.85	Os12g0547600	AK067865.1	-	Hypothetical protein	1e+0	At5g23340	-	O.I.	H.G.	S.X.
0.31	34.5	0.88	Os04g0497000	AK109382.2	-	(+)-pulegone reductase	5e-5	At3g03080	NADP-dependent oxidoreductase, putative	O.I.	H.G.	S.X.
0.30	32.7	0.77	Os02g0733900	AK111335.1	-	Conserved hypothetical protein	5e+0	At5g20181	unknown protein	O.I.	H.G.	S.X.
0.29	31.1	0.81	Os01g0862800	AK071274.1	-	No apical meristem (NAM) protein domain containingprotein	2e-1	At3g15680	zinc finger (Ran-binding) family protein	O.I.	H.G.	S.X.
0.28	31.1	0.89	Os04g0463500	AK107879.1	-	Anthranilate synthase beta subunit (EC 4.1.3.27)(At1g25220)	6e-13	At1g25220	ASB1 (ANTHRANILATE SYNTHASE BETA SUBUNIT 1)	O.I.	H.G.	S.X.
0.28	31.1	0.80	Os08g0482600	AK063639.1	-	Plastocyanin-like domain containing protein	2e+0	At1g22480	plastocyanin-like domain-containing protein	O.I.	H.G.	S.X.
0.28	31.1	0.85	Os10g0555100	AB164463.1	-	DNA chromosome 4, ESSA I CONTIG fragment NO. 6(Glucosyltransferase like protein)	7e-11	At2g35710	glycogenin glucosyltransferase (glycogenin)-related	O.I.	H.G.	S.X.
0.28	31.1	0.86	Os02g0693400	AK069300.1	-	Peptidase C19, ubiquitin carboxyl-terminalhydrolase 2 family protein	2e+0	At3g32052	unknown protein	O.I.	H.G.	S.X.
0.27	27.5	0.91	Os03g0302200	AK120853.1	-	Zn-finger-like, PHD finger domain containingprotein	3e-14	At3g05670	PHD finger family protein	O.I.	H.G.	S.X.
0.27	27.5	0.84	Os05g0516700	AK109131.1	-	Conserved hypothetical protein	2e+0	At3g18779	unknown protein	O.I.	H.G.	S.X.
0.27	27.5	0.88	Os04g0301500	AB040744.1	-	Basic helix-loop-helix dimerisation region bHLHdomain containing protein	7e-1	At3g02670	proline-rich family protein	O.I.	H.G.	S.X.
0.26	25.6	0.80	Os02g0703600	AK067007.1	-	Cytochrome P450 90C1 (EC 1.14.-.-) (ROTUNDIFOLIA3)	2e-2	At4g19230	CYP707A1	O.I.	H.G.	S.X.
0.26	25.6	0.90	Os03g0189100	AK066877.1	-	Conserved hypothetical protein	2e+0	At5g02150	binding	O.I.	H.G.	S.X.
0.26	25.6	0.80	Os09g0452900	AK068378.1	-	Glycosyl transferase, family 31 protein	6e-14	At1g05170	galactosyltransferase family protein	O.I.	H.G.	S.X.
0.25	24.1	0.89	Os10g0577600	AK073475.1	-	The start codon is not identified.	8e-21	At5g46910	transcription factor jumonji (jmj) family protein	O.I.	H.G.	S.X.
0.25	24.1	0.91	Os10g0392400	AK061602.1	-	ZIM domain containing protein	5e-1	At5g56320	ATEXPA14 (ARABIDOPSIS THALIANA EXPANSIN A14)	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
19.8 99.1 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
12.1 98.3 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.9 98.3 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.8 98.3 GSM377072 Genomic DNA - 45 day old leaf sample - mutant d1137 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.7 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
11.6 98.2 GSM377074 Genomic DNA - 45 day old leaf sample - mutant g282 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.6 98.2 GSM377070 Genomic DNA - 45 day old leaf sample - mutant d1 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.5 98.2 GSM377085 Genomic DNA - 45 day old leaf sample - mutant f2045 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.0 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
11.0 98.2 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
19.8	99.1	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
12.1	98.3	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.9	98.3	GSM377071	Genomic DNA - 45 day old leaf sample - mutant d256	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.8	98.3	GSM377072	Genomic DNA - 45 day old leaf sample - mutant d1137	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.7	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
11.6	98.2	GSM377074	Genomic DNA - 45 day old leaf sample - mutant g282	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.6	98.2	GSM377070	Genomic DNA - 45 day old leaf sample - mutant d1	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.5	98.2	GSM377085	Genomic DNA - 45 day old leaf sample - mutant f2045	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
11.0	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
11.0	98.2	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.015 1 GO:0009058 The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.015	1	GO:0009058	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

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	Os02g0126400
Gene name
Homology with Arabidopsis	Similar to At2g17890: CPK16 (HF=6e-30)
Module size	6 genes
NF	0.67
%ile	90.0

Co-expression analysis

Gene ID Os02g0126400 Gene name Homology with ArabidopsisSimilar to At2g17890: CPK16 (HF=6e-30) Module size 6 genes NF 0.67 %ile 90.0

Co-expressed genes

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO0.0151GO:0009058The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

Inter-species module comparison

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

Gene ID Os02g0126400

Gene name
Homology with Arabidopsis Similar to At2g17890: CPK16 (HF=6e-30)

Module size 6 genes

NF 0.67

%ile 90.0

SF Genes GO ID Process Name Link to AmiGO
0.015 1 GO:0009058 The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

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