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
AT1G80840.1	0.905423	WRKY40	OMAT1P024240	-	-	-
AT1G11960.1	0.898809	FUNCTIONS IN: molecular_function unknown	OMAT1P103810	-	-	-
AT1G63030.1	0.892102	ddf2 (DWARF AND DELAYED FLOWERING 2)	-	-	-	-
AT1G74930.1	0.867074	ORA47	OMAT1P021850	-	-	-
AT1G66500.1	0.865461	zinc finger (C2H2-type) family protein	-	-	-	-
AT2G30790.1	0.864341	PSBP-2 (photosystem II subunit P-2)	OMAT2P106430	-	-	-
AT2G28830.1	0.858453	binding / structural constituent of ribosome / ubiquitin-protein ligase	OMAT2P105830	-	-	-
AT5G24110.1	0.856415	WRKY30	OMAT5P107080	-	-	-
AT4G21930.1	0.85069	unknown protein	OMAT4P006690	-	-	-
AT4G35985.1	0.846664	senescence/dehydration-associated protein-related	OMAT4P110660	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT3G44800.1	-0.724211	meprin and TRAF homology domain-containing protein / MATH domain-containing protein	-	-	-	-
AT1G69150.1	-0.72373	DC1 domain-containing protein	-	-	-	-
AT2G19380.1	-0.709073	RNA recognition motif (RRM)-containing protein	-	-	-	-
AT2G10420.1	-0.704413	transposable element gene	-	-	-	-
AT3G48370.1	-0.695754	transposable element gene	-	-	-	-
AT2G41810.1	-0.685384	FUNCTIONS IN: molecular_function unknown	-	-	-	-
AT5G03400.1	-0.684679	unknown protein	-	-	-	-
AT2G10080.1	-0.683602	transposable element gene	-	-	-	-
AT3G05193.1	-0.681613	unknown protein	-	-	-	-
AT2G12950.1	-0.681472	transposable element gene	-	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 3.52e-09	:20 terms with high significance
3.52e-09 <	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	3	GO:0006950	response to stress	47/200	3.79	2.85e-16	5.28E-10	yes
B	4	GO:0006952	defense response	29/200	6.37	3.17e-16	5.28E-10	no
B	3	GO:0042221	response to chemical stimulus	42/200	3.68	3.43e-14	-	no
B	5	GO:0009743	response to carbohydrate stimulus	15/200	11.93	2.03e-13	-	no
B	4	GO:0010033	response to organic substance	31/200	4.64	2.11e-13	-	no
B	3	GO:0006955	immune response	17/200	8.97	9.14e-13	5.28E-10	no
B	4	GO:0045087	innate immune response	14/200	7.89	3.91e-10	-	no
B	3	GO:0009607	response to biotic stimulus	19/200	5.26	7.96e-10	-	no
B	3	GO:0008219	cell death	12/200	8.28	2.93e-09	-	no
B	3	GO:0051707	response to other organism	17/200	5.07	9.15e-09	-	no
B	3	GO:0023046	signaling process	16/200	4.94	3.42e-08	5.28E-10	no
B	3	GO:0023060	signal transmission	16/200	4.94	3.42e-08	5.28E-10	no
B	4	GO:0009617	response to bacterium	11/200	7.12	5.94e-08	-	no
B	3	GO:0009719	response to endogenous stimulus	18/200	3.49	1.20e-06	-	no
B	4	GO:0009725	response to hormone stimulus	17/200	3.60	1.47e-06	-	no
B	3	GO:0050789	regulation of biological process	37/200	2.14	3.22e-06	5.28E-10	yes
B	4	GO:0007165	signal transduction	12/200	4.17	7.36e-06	5.28E-10	no
B	3	GO:0023033	signaling pathway	13/200	3.85	8.83e-06	5.28E-10	no
B	5	GO:0071310	cellular response to organic substance	10/200	4.78	9.41e-06	-	no
B	4	GO:0070887	cellular response to chemical stimulus	10/200	4.40	2.03e-05	-	no
B	3	GO:0050794	regulation of cellular process	32/200	2.10	2.18e-05	5.28E-10	no
B	5	GO:0051252	regulation of RNA metabolic process	16/200	3.06	2.24e-05	-	no
B	5	GO:0032774	RNA biosynthetic process	16/200	2.92	4.05e-05	5.28E-10	no
B	3	GO:0051716	cellular response to stimulus	14/200	3.17	4.29e-05	-	no
B	3	GO:0009628	response to abiotic stimulus	17/200	2.29	4.97e-04	-	yes
B	5	GO:0006796	phosphate metabolic process	15/200	2.26	1.11e-03	-	no
B	4	GO:0006793	phosphorus metabolic process	15/200	2.26	1.12e-03	-	no
B	5	GO:0006464	protein modification process	20/200	1.92	1.83e-03	-	no
B	5	GO:0010556	regulation of macromolecule biosynthetic process	19/200	1.93	2.18e-03	-	no
B	5	GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	19/200	1.90	2.66e-03	-	no
B	4	GO:0009889	regulation of biosynthetic process	19/200	1.89	2.71e-03	5.28E-10	no
B	5	GO:0031326	regulation of cellular biosynthetic process	19/200	1.89	2.71e-03	5.28E-10	no
B	4	GO:0031323	regulation of cellular metabolic process	20/200	1.85	2.86e-03	-	no
B	4	GO:0051171	regulation of nitrogen compound metabolic process	19/200	1.88	2.98e-03	-	no
B	5	GO:0006350	transcription	19/200	1.86	3.25e-03	0	no
B	4	GO:0080090	regulation of primary metabolic process	19/200	1.80	4.60e-03	-	no
B	4	GO:0043412	macromolecule modification	20/200	1.76	4.95e-03	-	no
B	5	GO:0010468	regulation of gene expression	19/200	1.78	5.23e-03	1.01E-15	no
B	5	GO:0016070	RNA metabolic process	16/200	1.88	5.39e-03	-	no
B	4	GO:0060255	regulation of macromolecule metabolic process	19/200	1.74	6.96e-03	-	no
B	3	GO:0019222	regulation of metabolic process	20/200	1.70	7.47e-03	-	no

C	4	GO:0031224	intrinsic to membrane	12/200	2.24	3.06e-03	-	no
C	5	GO:0005634	nucleus	26/200	1.66	3.84e-03	3.64E-21	no

M	3	GO:0004871	signal transducer activity	11/200	4.89	3.16e-06	-	no
M	5	GO:0016301	kinase activity	22/200	2.73	6.45e-06	5.28E-10	no
M	4	GO:0016772	transferase activity, transferring phosphorus-containing groups	23/200	2.51	1.72e-05	-	no
M	3	GO:0003700	transcription factor activity	24/200	2.38	2.85e-05	5.28E-10	yes
M	5	GO:0016773	phosphotransferase activity, alcohol group as acceptor	17/200	2.74	5.71e-05	-	no
M	3	GO:0005515	protein binding	31/200	1.98	8.59e-05	6.00E-32	no
M	5	GO:0030554	adenyl nucleotide binding	21/200	2.32	1.15e-04	-	no
M	4	GO:0001883	purine nucleoside binding	21/200	2.32	1.15e-04	-	no
M	3	GO:0001882	nucleoside binding	21/200	2.32	1.19e-04	-	no
M	4	GO:0003677	DNA binding	27/200	1.95	3.01e-04	0	yes
M	4	GO:0017076	purine nucleotide binding	21/200	2.02	7.54e-04	-	no
M	3	GO:0016740	transferase activity	29/200	1.77	8.99e-04	-	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

PS	4	PO:0020030	cotyledon	119/200	1.62	1.75e-11	5.28E-10	yes
PS	4	PO:0009047	stem	127/200	1.51	3.81e-10	5.28E-10	yes
PS	4	PO:0009025	leaf	134/200	1.46	6.13e-10	5.28E-10	yes
PS	5	PO:0020039	leaf lamina	121/200	1.47	1.24e-08	5.28E-10	yes
PS	5	PO:0020038	petiole	114/200	1.50	1.84e-08	5.28E-10	no
PS	3	PO:0006001	phyllome	140/200	1.37	2.28e-08	-	yes
PS	5	PO:0009028	microsporophyll	120/200	1.43	8.81e-08	-	yes
PS	5	PO:0008037	seedling	124/200	1.40	1.25e-07	5.28E-10	yes
PS	4	PO:0000230	inflorescence meristem	113/200	1.45	1.45e-07	5.28E-10	no
PS	4	PO:0009001	fruit	133/200	1.35	2.47e-07	5.28E-10	yes
PS	3	PO:0006342	infructescence	133/200	1.35	2.47e-07	-	yes
PS	3	PO:0009006	shoot	142/200	1.31	4.22e-07	5.28E-10	yes
PS	4	PO:0009026	sporophyll	124/200	1.38	4.57e-07	-	yes
PS	5	PO:0008034	leaf whorl	128/200	1.36	5.48e-07	-	no
PS	4	PO:0008033	phyllome whorl	128/200	1.36	5.48e-07	-	no
PS	3	PO:0009013	meristem	113/200	1.41	1.08e-06	5.28E-10	no
PS	3	PO:0009010	seed	130/200	1.33	1.55e-06	5.28E-10	yes
PS	4	PO:0009009	embryo	128/200	1.32	2.75e-06	5.28E-10	yes
PS	5	PO:0009046	flower	135/200	1.30	3.08e-06	5.28E-10	yes
PS	4	PO:0009049	inflorescence	135/200	1.29	4.64e-06	5.28E-10	yes
PS	5	PO:0000013	cauline leaf	107/200	1.39	7.05e-06	-	no
PS	3	PO:0009031	sepal	119/200	1.29	5.77e-05	5.28E-10	no
PS	3	PO:0009005	root	116/200	1.29	8.22e-05	5.28E-10	yes
PS	4	PO:0000037	shoot apex	108/200	1.26	6.92e-04	-	yes

PG	5	PO:0007133	leaf production	125/200	1.49	1.82e-09	-	yes
PG	4	PO:0007112	1 main shoot growth	125/200	1.49	1.84e-09	-	yes
PG	3	PO:0007134	A vegetative growth	125/200	1.48	3.05e-09	5.28E-10	yes
PG	3	PO:0007615	flower development stages	133/200	1.27	1.82e-05	5.28E-10	yes
PG	4	PO:0007616	4 anthesis	125/200	1.29	2.42e-05	-	yes
PG	5	PO:0007604	corolla developmental stages	126/200	1.28	3.76e-05	-	yes
PG	4	PO:0007600	3 floral organ development stages	128/200	1.26	7.17e-05	5.28E-10	yes
PG	4	PO:0001054	4 leaf senescence stage	102/200	1.33	1.16e-04	-	no
PG	3	PO:0001050	leaf development stages	102/200	1.33	1.19e-04	5.28E-10	no

KW	0	response	-	52/200	2.90	3.61e-13	2.00E-12	yes
KW	0	chitin	-	11/200	15.12	1.06e-11	5.28E-10	no
KW	0	ipr001471	-	10/200	11.39	1.52e-09	-	yes
KW	0	defense	-	18/200	5.16	2.79e-09	5.28E-10	no
KW	0	ipr002182	-	10/200	10.52	3.52e-09	-	no
KW	0	ipr016177	-	10/200	10.46	3.76e-09	-	yes
KW	0	integrase	-	10/200	9.39	1.15e-08	-	yes
KW	0	pathogenesis	-	11/200	7.56	3.07e-08	8.00E-23	yes
KW	0	ipr008271	-	19/200	3.89	1.18e-07	-	no
KW	0	transcriptional	-	13/200	5.39	1.70e-07	2.00E-23	yes
KW	0	resistance	-	14/200	4.92	2.10e-07	5.28E-10	no
KW	0	disease	-	11/200	6.29	2.28e-07	5.28E-10	no
KW	0	ipr017442	-	19/200	3.61	3.92e-07	-	no
KW	0	ipr001611	-	13/200	4.60	1.13e-06	-	no
KW	0	ipr000719	-	20/200	3.21	1.34e-06	-	no
KW	0	receptor	-	17/200	3.57	1.61e-06	5.28E-10	no
KW	0	responsive	-	13/200	4.34	2.22e-06	6.00E-32	yes
KW	0	ipr011009	-	20/200	3.09	2.40e-06	-	no
KW	0	kinase	-	27/200	2.56	2.47e-06	5.28E-10	no
KW	0	threonine	-	21/200	2.80	6.93e-06	5.28E-10	no
KW	0	ipr017441	-	15/200	3.49	7.56e-06	-	no
KW	0	member	-	26/200	2.37	1.44e-05	5.28E-10	yes
KW	0	leucine	-	16/200	3.05	2.38e-05	5.28E-10	no
KW	0	subfamily	-	12/200	3.72	2.45e-05	4.06E-17	yes
KW	0	related	-	49/200	1.74	2.66e-05	8.00E-23	yes
KW	0	processes	-	11/200	3.63	6.03e-05	5.28E-10	no
KW	0	serine	-	21/200	2.36	9.29e-05	5.28E-10	no
KW	0	phosphorylation	-	16/200	2.60	1.62e-04	5.28E-10	no
KW	0	ipr002290	-	10/200	3.39	2.04e-04	-	no
KW	0	active	-	19/200	2.32	2.24e-04	5.28E-10	no
KW	0	tyrosine	-	11/200	3.10	2.60e-04	-	no
KW	0	stress	-	13/200	2.77	2.91e-04	7.86E-16	yes
KW	0	stimulus	-	12/200	2.79	4.29e-04	5.28E-10	no
KW	0	nucleus	-	25/200	1.94	5.26e-04	3.64E-21	no
KW	0	transduction	-	10/200	3.02	5.38e-04	5.28E-10	no
KW	0	transmembrane	-	16/200	2.20	1.06e-03	-	no
KW	0	class	-	14/200	2.34	1.08e-03	5.28E-10	no
KW	0	encodes	-	40/200	1.57	1.38e-03	1.59E-16	yes
KW	0	signaling	-	10/200	2.69	1.40e-03	5.28E-10	no
KW	0	signal	-	11/200	2.51	1.65e-03	5.28E-10	no
KW	0	amino	-	17/200	1.97	2.66e-03	1.80E-15	no
KW	0	transcription	-	24/200	1.65	5.60e-03	0	yes
KW	0	function	-	25/200	1.60	7.10e-03	2.46E-15	no
KW	0	membrane	-	38/200	1.43	8.81e-03	5.28E-10	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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