Table 4. The involved unigenes in Flavone and flavonol biosynthesis and Anthocyanin biosynthesis pathways.

	Orthology	Entry ofenzyme	Unigenes	Ratio1	Status2	Encoded protein
Flavonoidbiosynthesis	K00660	2.3.1.74	Unigene56280_All	−1.9	D	chalcone synthase (CHS)
	K00588	2.1.1.104	Unigene34142_All	−1.4	D	caffeoyl-CoA O-methyltransferase
			Unigene42690_All	−3.6	D
			Unigene10308_All	−1.1	D
	K01859	5.5.1.6	Unigene69406_All	−1.6	D	chalcone isomerase (CHI)
	K05277	1.14.11.19	Unigene56780_All	−2.3	D	anthocyanidin synthase (ANS)
			Unigene57093_All	−3.0	D
			Unigene5167_All	−1.6	D
	K08695	1.3.1.77	Unigene43073_All	−1.1	D	anthocyanidin reductase (ANR)
	K05280	1.14.13.21	Unigene71334_All	2.8	U	flavonoid 3'-hydroxylase (F3'H)
	K00475	1.14.11.9	Unigene70267_All	3.9	U	flavanone 3-hydroxylase (F3H)
			Unigene71550_All	4.2	U
	K05278	1.14.11.23	Unigene70581_All	4.1	U	flavonol synthase (FLS)
			Unigene6472_All	1.0	U
Flavone andflavonolbiosynthesis	K05280	1.14.13.21	Unigene71334_All	2.8	U	flavonoid 3'-hydroxylase (F3'H)
	K05279	2.1.1.76	Unigene13368_All	−2.2	D	flavonol 3-O-methyltransferase (FOMT)
			Unigene21288_All	−1.4	D
			Unigene38018_All	−1.2	D
			Unigene47446_All	−2.4	D
			Unigene47563_All	−3.7	D
			Unigene50636_All	−2.7	D
			Unigene57809_All	−1.7	D
			Unigene58594_All	−1.9	D
			Unigene70908_All	−1.7	D
			Unigene9272_All	−1.1	D
	K10757	2.4.1.91	Unigene50839_All	1.0	U	flavonol 3-O-glucosyltransferase (FOGT)
			Unigene8998_All	2.1	U
			Unigene54635_All	−4.3	D
Anthocyaninbiosynthesis	K12338	2.4.1.298	Unigene18122_All	2.2	U	anthocyanin 5-O-glucosyltransferase (5GT)
			Unigene59143_All	12.0	U
			Unigene67316_All	12.5	U
			Unigene71660_All	12.9	U

1: ratio indicated log2(z128_RPKM/Z263_RPKM).

2: “U” indicated that this unigene was up-regulated; “D” indicated down-regulated.