Other supporting information

Gene Model

Correlation Plot

Expression profile (Values are plotted in Log(2) values.)

Genes with related expresssion profiles.

Positively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT1G48630.1	0.965396	RACK1B_AT (RECEPTOR FOR ACTIVATED C KINASE 1 B)	OMAT1P111800	-	-	-
AT3G18130.1	0.960122	RACK1C_AT (RECEPTOR FOR ACTIVATED C KINASE 1 C)	OMAT3P106060	-	-	-
AT1G18540.1	0.96008	60S ribosomal protein L6 (RPL6A)	OMAT1P105940	-	-	-
AT5G59850.1	0.955551	40S ribosomal protein S15A (RPS15aF)	OMAT5P116020	-	-	-
AT4G38890.1	0.955272	dihydrouridine synthase family protein	OMAT4P111850	-	-	-
AT4G10480.1	0.955069	nascent polypeptide associated complex alpha chain protein, putative / alpha-NAC, putative	OMAT4P102090	-	OMAT4P002550	-
AT1G07070.1	0.954192	60S ribosomal protein L35a (RPL35aA)	OMAT1P002275	-	-	-
AT3G49010.1	0.953641	ATBBC1 (ARABIDOPSIS THALIANA BREAST BASIC CONSERVED 1)	OMAT3P111280	-	-	-
AT1G56110.1	0.953156	NOP56 (Arabidopsis homolog of nucleolar protein Nop56)	OMAT1P113970	-	-	-
AT3G21110.1	0.95264	PUR7 (PURIN 7)	OMAT3P106930	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT3G03150.1	-0.834373	unknown protein	OMAT3P100900,OMAT3P100910	[OMAT3P100900]-, [OMAT3P100910]-	-	-
AT4G17170.1	-0.799223	RABB1C (ARABIDOPSIS RAB GTPASE HOMOLOG B1C)	OMAT4P104230	-	-	-
AT5G27280.1	-0.776778	zinc finger (DNL type) family protein	OMAT5P009230	-	OMAT5P108030	-
AT1G20620.1	-0.744668	CAT3 (CATALASE 3)	OMAT1P007530,OMAT1P007540	[OMAT1P007530]-, [OMAT1P007540]-	OMAT1P106670	-
AT2G36895.1	-0.730385	unknown protein	OMAT2P108545	-	-	-
AT5G66211.1	-0.707951	unknown protein	-	-	-	-
AT1G37007.1	-0.703093	unknown protein	-	-	-	-
AT3G12400.1	-0.702434	ELC	OMAT3P104070	-	OMAT3P004350	-
AT1G55000.1	-0.701086	peptidoglycan-binding LysM domain-containing protein	OMAT1P015300	-	-	-
AT3G52070.1	-0.699599	unknown protein	OMAT3P014050	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 1.29e-56	:20 terms with high significance
1.29e-56 <	p-value	<= 8.76e-06	:With considering multiple testing correction; p <= 1.00e-02 / 1142
8.76e-06 <	p-value	<= 1.00e-02

Type of term (*1)	Depth of the term in ontology tree	ID/Term	Description	Number of genes	Over-Representative rate (*2)	p-value (*3)	PosMed p-value (*4) (Link to PosMed)	Found on gene annotation
B	5	GO:0006412	translation	75/200	10.34	1.29e-56	1.21E-16	no
B	4	GO:0010467	gene expression	88/200	4.32	4.70e-36	-	no
B	3	GO:0022613	ribonucleoprotein complex biogenesis	30/200	22.67	2.66e-33	-	no
B	4	GO:0042254	ribosome biogenesis	29/200	22.64	3.07e-32	-	no
B	5	GO:0044267	cellular protein metabolic process	81/200	3.97	3.45e-30	-	no
B	5	GO:0034645	cellular macromolecule biosynthetic process	79/200	3.66	5.65e-27	-	no
B	4	GO:0009059	macromolecule biosynthetic process	79/200	3.65	6.93e-27	-	no
B	4	GO:0019538	protein metabolic process	81/200	3.51	1.72e-26	-	yes
B	4	GO:0044249	cellular biosynthetic process	88/200	3.13	1.66e-25	-	no
B	4	GO:0044260	cellular macromolecule metabolic process	98/200	2.78	5.37e-25	-	no
B	3	GO:0009058	biosynthetic process	88/200	3.02	1.92e-24	-	no
B	3	GO:0043170	macromolecule metabolic process	98/200	2.53	7.40e-22	-	yes
B	3	GO:0044237	cellular metabolic process	109/200	2.31	1.07e-21	-	no
B	3	GO:0044238	primary metabolic process	108/200	2.18	2.11e-19	-	yes
B	5	GO:0006396	RNA processing	13/200	5.87	5.95e-08	-	no
B	5	GO:0016070	RNA metabolic process	16/200	1.88	5.39e-03	-	no

C	4	GO:0005840	ribosome	74/200	28.88	5.62e-90	-	no
C	4	GO:0033279	ribosomal subunit	65/200	40.03	6.22e-89	-	no
C	3	GO:0030529	ribonucleoprotein complex	79/200	22.65	2.08e-87	-	no
C	3	GO:0043228	non-membrane-bounded organelle	91/200	15.27	1.56e-85	-	yes
C	4	GO:0043232	intracellular non-membrane-bounded organelle	91/200	15.27	1.56e-85	-	yes
C	5	GO:0022626	cytosolic ribosome	64/200	34.78	4.20e-83	-	no
C	5	GO:0044445	cytosolic part	59/200	39.40	4.18e-80	-	no
C	5	GO:0005829	cytosol	65/200	15.71	1.75e-60	-	no
C	5	GO:0015934	large ribosomal subunit	42/200	45.64	3.15e-60	-	no
C	3	GO:0044446	intracellular organelle part	96/200	6.70	8.53e-57	-	yes
C	3	GO:0044422	organelle part	96/200	6.69	9.21e-57	-	yes
C	3	GO:0043229	intracellular organelle	134/200	2.90	9.57e-41	-	yes
C	3	GO:0044424	intracellular part	138/200	2.71	4.85e-39	-	yes
C	3	GO:0005622	intracellular	140/200	2.63	1.99e-38	-	yes
C	4	GO:0044444	cytoplasmic part	115/200	3.31	2.85e-38	-	no
C	4	GO:0005737	cytoplasm	115/200	3.07	4.89e-35	-	no
C	5	GO:0005730	nucleolus	32/200	18.67	1.59e-32	-	yes
C	4	GO:0070013	intracellular organelle lumen	37/200	13.64	3.72e-32	-	yes
C	3	GO:0043233	organelle lumen	37/200	13.61	4.04e-32	-	yes
C	5	GO:0031981	nuclear lumen	34/200	14.06	4.00e-30	-	yes
C	5	GO:0015935	small ribosomal subunit	23/200	32.69	4.13e-30	-	no
C	4	GO:0044428	nuclear part	34/200	10.22	2.06e-25	-	yes
C	3	GO:0044464	cell part	151/200	1.65	2.24e-18	-	yes
C	4	GO:0043231	intracellular membrane-bounded organelle	91/200	2.07	3.72e-14	-	yes
C	3	GO:0043227	membrane-bounded organelle	91/200	2.07	3.75e-14	-	yes
C	5	GO:0005634	nucleus	43/200	2.75	2.87e-10	3.64E-21	yes
C	5	GO:0005739	mitochondrion	25/200	3.91	1.52e-09	-	no
C	3	GO:0016020	membrane	56/200	2.04	3.18e-08	3.64E-21	yes
C	4	GO:0005886	plasma membrane	33/200	2.66	7.93e-08	3.64E-21	yes
C	4	GO:0005618	cell wall	14/200	4.22	1.45e-06	-	no
C	3	GO:0030312	external encapsulating structure	14/200	4.19	1.59e-06	-	no
C	5	GO:0009536	plastid	30/200	1.62	2.97e-03	-	no

M	3	GO:0003735	structural constituent of ribosome	72/200	33.25	2.73e-92	-	no
M	3	GO:0000166	nucleotide binding	31/200	2.35	2.99e-06	-	no
M	4	GO:0003723	RNA binding	20/200	2.88	7.12e-06	-	no
M	4	GO:0017076	purine nucleotide binding	20/200	1.93	1.76e-03	-	no
M	5	GO:0032555	purine ribonucleotide binding	19/200	1.94	2.09e-03	-	no
M	4	GO:0032553	ribonucleotide binding	19/200	1.94	2.09e-03	-	no
M	5	GO:0030554	adenyl nucleotide binding	17/200	1.88	4.43e-03	-	no
M	4	GO:0001883	purine nucleoside binding	17/200	1.88	4.43e-03	-	no
M	3	GO:0001882	nucleoside binding	17/200	1.87	4.55e-03	-	no

PS	5	PO:0020038	petiole	165/200	2.17	3.90e-39	-	yes
PS	5	PO:0020039	leaf lamina	166/200	2.01	5.65e-35	-	yes
PS	5	PO:0009052	pedicel	164/200	2.02	3.97e-34	-	yes
PS	4	PO:0000037	shoot apex	167/200	1.94	4.06e-33	-	yes
PS	4	PO:0009025	leaf	170/200	1.85	2.01e-31	-	yes
PS	3	PO:0009032	petal	165/200	1.88	2.48e-30	-	yes
PS	5	PO:0000013	cauline leaf	155/200	2.01	5.39e-30	-	yes
PS	5	PO:0008037	seedling	163/200	1.85	2.42e-28	-	yes
PS	3	PO:0009005	root	164/200	1.82	5.90e-28	-	yes
PS	4	PO:0020030	cotyledon	147/200	2.00	6.05e-27	-	yes
PS	5	PO:0009028	microsporophyll	157/200	1.87	7.42e-27	-	yes
PS	5	PO:0009027	megasporophyll	157/200	1.87	8.68e-27	-	yes
PS	5	PO:0008034	leaf whorl	166/200	1.76	1.15e-26	-	yes
PS	4	PO:0008033	phyllome whorl	166/200	1.76	1.15e-26	-	yes
PS	3	PO:0009031	sepal	164/200	1.78	2.11e-26	-	yes
PS	4	PO:0009009	embryo	167/200	1.73	5.99e-26	-	yes
PS	3	PO:0009010	seed	167/200	1.71	3.37e-25	-	yes
PS	4	PO:0009001	fruit	167/200	1.70	6.94e-25	-	yes
PS	3	PO:0006342	infructescence	167/200	1.70	6.94e-25	-	yes
PS	3	PO:0006001	phyllome	170/200	1.66	1.45e-24	-	yes
PS	4	PO:0009047	stem	154/200	1.83	1.98e-24	-	yes
PS	3	PO:0009013	meristem	150/200	1.87	2.57e-24	-	yes
PS	4	PO:0009026	sporophyll	159/200	1.77	2.61e-24	-	yes
PS	4	PO:0000230	inflorescence meristem	145/200	1.87	9.12e-23	-	yes
PS	3	PO:0009006	shoot	171/200	1.57	8.33e-22	-	yes
PS	5	PO:0009046	flower	167/200	1.61	1.51e-21	-	yes
PS	4	PO:0009049	inflorescence	167/200	1.60	3.38e-21	-	yes
PS	4	PO:0000293	guard cell	43/200	4.00	9.12e-16	-	no
PS	4	PO:0000351	guard mother cell	43/200	3.98	1.07e-15	-	no
PS	3	PO:0000070	meristemoid	43/200	3.97	1.14e-15	-	no
PS	5	PO:0006016	leaf epidermis	43/200	3.87	2.96e-15	-	no
PS	5	PO:0006035	shoot epidermis	43/200	3.84	3.80e-15	-	no
PS	5	PO:0000349	epidermal initial	43/200	3.81	4.87e-15	-	no
PS	4	PO:0004011	initial cell	43/200	3.79	6.10e-15	-	no
PS	3	PO:0004010	meristematic cell	43/200	3.78	6.45e-15	-	no
PS	3	PO:0020091	male gametophyte	136/200	1.64	9.12e-15	-	yes
PS	3	PO:0004013	epidermal cell	43/200	3.61	3.49e-14	-	no
PS	4	PO:0005679	epidermis	43/200	3.47	1.28e-13	-	no
PS	3	PO:0009014	dermal tissue	43/200	3.47	1.31e-13	-	no
PS	3	PO:0000084	sperm cell	54/200	1.66	3.70e-05	-	no
PS	3	PO:0020097	generative cell	54/200	1.66	3.70e-05	-	no

PG	5	PO:0001081	F mature embryo stage	166/200	2.09	3.15e-37	-	yes
PG	5	PO:0004507	D bilateral stage	166/200	2.02	5.13e-35	-	yes
PG	5	PO:0001078	E expanded cotyledon stage	166/200	2.00	1.55e-34	-	yes
PG	5	PO:0001185	C globular stage	165/200	2.01	2.10e-34	-	yes
PG	3	PO:0007134	A vegetative growth	165/200	1.95	2.02e-32	-	yes
PG	5	PO:0007133	leaf production	164/200	1.95	4.91e-32	-	yes
PG	4	PO:0007112	1 main shoot growth	164/200	1.95	5.06e-32	-	yes
PG	4	PO:0001054	4 leaf senescence stage	157/200	2.04	8.81e-32	-	yes
PG	3	PO:0001050	leaf development stages	157/200	2.04	9.48e-32	-	yes
PG	4	PO:0007631	embryo development stages	166/200	1.84	1.82e-29	-	yes
PG	3	PO:0001170	seed development stages	166/200	1.84	3.36e-29	-	yes
PG	5	PO:0007604	corolla developmental stages	167/200	1.69	1.18e-24	-	yes
PG	4	PO:0007616	4 anthesis	165/200	1.70	2.89e-24	-	yes
PG	4	PO:0007600	3 floral organ development stages	168/200	1.65	1.72e-23	-	yes
PG	3	PO:0007615	flower development stages	168/200	1.60	7.64e-22	-	yes

KW	0	ribosome	-	78/200	29.54	6.17e-96	-	no
KW	0	ribosomal	-	80/200	26.50	1.98e-94	-	no
KW	0	constituent	-	73/200	26.05	3.77e-85	-	no
KW	0	structural	-	73/200	20.82	1.38e-77	6.23E-16	yes
KW	0	translation	-	78/200	15.74	2.24e-73	1.21E-16	no
KW	0	cytosolic	-	58/200	27.09	3.10e-68	-	no
KW	0	subunit	-	77/200	10.50	9.22e-59	-	no
KW	0	large	-	39/200	25.43	7.33e-45	-	no
KW	0	nucleolus	-	27/200	19.86	1.59e-28	-	yes
KW	0	biogenesis	-	25/200	18.39	1.09e-25	-	no
KW	0	small	-	31/200	7.69	1.31e-19	-	no
KW	0	conserved	-	42/200	3.10	1.05e-11	-	no
KW	0	eukaryotic	-	16/200	8.14	1.79e-11	-	no
KW	0	ipr002885	-	16/200	5.71	4.06e-09	-	no
KW	0	pentatricopeptide	-	16/200	5.51	6.89e-09	-	no
KW	0	mitochondrion	-	22/200	4.01	8.07e-09	-	no
KW	0	processing	-	11/200	7.75	2.33e-08	-	no
KW	0	mitochondrial	-	13/200	5.76	7.51e-08	-	no
KW	0	nucleotide	-	21/200	3.30	4.84e-07	-	no
KW	0	components	-	10/200	6.16	8.27e-07	-	no
KW	0	membrane	-	48/200	1.80	1.35e-05	3.64E-21	yes
KW	0	intracellular	-	15/200	2.91	6.91e-05	-	no
KW	0	complex	-	20/200	2.36	1.27e-04	1.40E-15	no
KW	0	repeat	-	26/200	2.00	2.50e-04	-	no
KW	0	nuclear	-	10/200	3.25	2.91e-04	-	yes
KW	0	terminal	-	34/200	1.76	3.86e-04	-	no
KW	0	alpha	-	17/200	2.33	4.14e-04	-	no
KW	0	plasma	-	23/200	2.01	5.12e-04	3.64E-21	yes
KW	0	nucleic	-	15/200	2.29	9.44e-04	-	no
KW	0	stress	-	10/200	2.13	7.91e-03	-	no

(*1)	[B]:Biological process(Gene ontology), [C]:Cellular component(Gene ontology), [M]:Molecular function(Gene ontology), [PS]:Plant Structure(Plant ontology), [PG]:Growth and developmental stages(Plant ontology), [KW]:words found in gene description.
(*2)	([# of genes with the term] / [# of sampling (200)]) / ([# of genes with the term among whole genes] / [# of whole genes])
(*3)	P-values were calculated on hypergeometric distribution in which we found n genes with a annotation term during 200 highly correlated genes, while we had N genes with the term in the whole genes.
(*4)	PosMed is a system which serve a p-values showing a relationship between the gene and the annotation term based on literature information and Gene-Gene interaction suchas co-expression or protein-protein interactions.

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