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
AT3G26100.2	0.906304	regulator of chromosome condensation (RCC1) family protein	OMAT3P009800	-	-	-
AT4G26490.1	0.906304	FUNCTIONS IN: molecular_function unknown	OMAT4P008390	-	-	-
AT4G40040.1	0.869637	histone H3.2	OMAT4P112220	-	-	-
AT5G48775.1	0.863352	other RNA	-	-	-	-
AT4G23330.1	0.8628	eukaryotic translation initiation factor-related	-	-	-	-
AT4G04320.1	0.86251	malonyl-CoA decarboxylase family protein	OMAT4P001430	-	-	-
AT5G52510.1	0.860865	scarecrow-like transcription factor 8 (SCL8)	OMAT5P015230	-	-	-
AT1G76705.1	0.859617	calmodulin binding	-	-	-	-
AT2G01460.1	0.855486	ATP binding / kinase	OMAT2P000100	-	-	-
AT5G06120.1	0.851328	Ran-binding protein, putative	-	-	-	-
Negatively Correlated Genes
Gens	PCC	Definition	Overlap gene	Definition	Overlap gene(antisense)	Definition
AT3G08740.1	-0.867593	elongation factor P (EF-P) family protein	OMAT3P102800	-	-	-
AT1G29070.1	-0.846682	ribosomal protein L34 family protein	OMAT1P010230	-	-	-
AT1G78630.1	-0.842967	emb1473 (embryo defective 1473)	OMAT1P023410	-	-	-
AT3G63490.1	-0.831724	ribosomal protein L1 family protein	OMAT3P018190	-	-	-
AT4G24770.1	-0.830423	RBP31 (31-KDA RNA BINDING PROTEIN)	OMAT4P106670	-	-	-
AT5G65220.1	-0.828561	ribosomal protein L29 family protein	OMAT5P020130	-	-	-
AT3G25920.1	-0.824921	RPL15	OMAT3P108430	-	-	-
AT1G73530.1	-0.82048	RNA recognition motif (RRM)-containing protein	OMAT1P118740	-	-	-
AT2G11010.1	-0.820385	FUNCTIONS IN: molecular_function unknown	-	-	-	-
AT4G36390.1	-0.820144	radical SAM domain-containing protein / TRAM domain-containing protein	OMAT4P110820	-	-	-

Get whole results

Over-Representation Analysis Result

	p-value	<= 5.54e-07	:20 terms with high significance
5.54e-07 <	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:0006508	proteolysis	13/200	3.10	9.16e-05	-	no
B	3	GO:0043170	macromolecule metabolic process	52/200	1.34	8.23e-03	-	no

PS	3	PO:0020091	male gametophyte	131/200	1.58	2.00e-12	-	no
PS	4	PO:0000230	inflorescence meristem	123/200	1.58	2.75e-11	-	no
PS	3	PO:0009013	meristem	125/200	1.56	5.55e-11	-	no
PS	5	PO:0009027	megasporophyll	128/200	1.52	1.04e-10	-	no
PS	4	PO:0009047	stem	128/200	1.52	1.52e-10	-	yes
PS	4	PO:0009026	sporophyll	131/200	1.46	1.63e-09	-	no
PS	5	PO:0009028	microsporophyll	124/200	1.48	3.41e-09	-	no
PS	3	PO:0009031	sepal	132/200	1.43	5.11e-09	-	no
PS	4	PO:0006345	pollen tube	59/200	2.03	1.73e-08	-	no
PS	4	PO:0009049	inflorescence	141/200	1.35	5.15e-08	-	yes
PS	5	PO:0009046	flower	140/200	1.35	7.21e-08	-	yes
PS	3	PO:0009006	shoot	143/200	1.32	1.94e-07	-	yes
PS	3	PO:0009005	root	125/200	1.39	2.15e-07	-	yes
PS	4	PO:0009025	leaf	126/200	1.37	4.36e-07	-	yes
PS	3	PO:0006001	phyllome	136/200	1.33	5.41e-07	-	yes
PS	5	PO:0008037	seedling	122/200	1.38	5.54e-07	-	no
PS	5	PO:0008034	leaf whorl	127/200	1.35	1.13e-06	-	no
PS	4	PO:0008033	phyllome whorl	127/200	1.35	1.13e-06	-	no
PS	3	PO:0000084	sperm cell	58/200	1.79	1.82e-06	-	no
PS	3	PO:0020097	generative cell	58/200	1.79	1.82e-06	-	no
PS	5	PO:0020039	leaf lamina	113/200	1.37	4.63e-06	-	no
PS	4	PO:0009009	embryo	127/200	1.31	5.40e-06	-	no
PS	4	PO:0009001	fruit	128/200	1.30	8.46e-06	-	yes
PS	3	PO:0006342	infructescence	128/200	1.30	8.46e-06	-	yes
PS	3	PO:0009032	petal	117/200	1.33	1.08e-05	-	no
PS	3	PO:0009010	seed	127/200	1.30	1.17e-05	-	no
PS	5	PO:0000013	cauline leaf	106/200	1.37	1.33e-05	-	yes
PS	4	PO:0020030	cotyledon	101/200	1.38	2.47e-05	-	no
PS	5	PO:0009052	pedicel	108/200	1.33	5.09e-05	-	no
PS	4	PO:0000037	shoot apex	112/200	1.30	8.29e-05	-	no
PS	5	PO:0020038	petiole	94/200	1.23	3.94e-03	-	no

PG	4	PO:0007616	4 anthesis	135/200	1.39	1.76e-08	-	no
PG	5	PO:0007605	androecium developmental stages	59/200	2.01	2.10e-08	-	no
PG	3	PO:0007615	flower development stages	141/200	1.35	5.47e-08	-	no
PG	4	PO:0007600	3 floral organ development stages	137/200	1.34	1.55e-07	-	no
PG	5	PO:0007604	corolla developmental stages	132/200	1.34	6.86e-07	-	no
PG	3	PO:0007134	A vegetative growth	117/200	1.38	1.51e-06	-	no
PG	5	PO:0007133	leaf production	116/200	1.38	1.98e-06	-	no
PG	4	PO:0007112	1 main shoot growth	116/200	1.38	2.00e-06	-	no
PG	4	PO:0007631	embryo development stages	119/200	1.32	1.42e-05	-	no
PG	5	PO:0001081	F mature embryo stage	108/200	1.36	1.70e-05	-	no
PG	3	PO:0001170	seed development stages	119/200	1.32	1.81e-05	-	no
PG	5	PO:0001185	C globular stage	110/200	1.34	2.44e-05	-	no
PG	5	PO:0001078	E expanded cotyledon stage	110/200	1.33	4.37e-05	-	no
PG	5	PO:0004507	D bilateral stage	109/200	1.32	5.38e-05	-	no
PG	4	PO:0001054	4 leaf senescence stage	103/200	1.34	6.59e-05	-	no
PG	3	PO:0001050	leaf development stages	103/200	1.34	6.76e-05	-	no

KW	0	proteolysis	-	10/200	4.09	3.97e-05	-	no
KW	0	peptidase	-	12/200	3.01	2.03e-04	-	no
KW	0	ipr013083	-	10/200	3.19	3.43e-04	-	no
KW	0	finger	-	19/200	2.05	1.04e-03	-	no
KW	0	catalytic	-	18/200	1.77	6.72e-03	-	no
KW	0	regulation	-	22/200	1.66	6.91e-03	-	no
KW	0	associated	-	13/200	1.90	9.12e-03	-	no

(*1)	[B]:Biological process(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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