Flavonoid pathway (WP3620)

Arabidopsis thaliana

Pathway describing the flavonoid biosynthesis.


Kozo Nishida , Atsushi Fukushima , Egon Willighagen , Alex Pico , Kristina Hanspers , Denise Slenter , Toshiaki TOKIMATSU , and Martina Summer-Kutmon


last edited

Discuss this pathway

Check for ongoing discussions or start your own.

Cited In

Are you planning to include this pathway in your next publication? See How to Cite and add a link here to your paper once it's online.


Arabidopsis thaliana



Pathway Ontology

classic metabolic pathway flavonoid biosynthetic pathway


Label Type Compact URI Comment
Prunin Metabolite knapsack:C00000998
Naringin Metabolite knapsack:C00000983
Naringenin 4'-O-glucoside Metabolite knapsack:C00008208
p-Coumaroyl-CoA Metabolite kegg.compound:C00223
Naringenin chalcone Metabolite kegg.compound:C06561
Naringenin Metabolite knapsack:C00000982
Diosmetin 7-neohesperidoside Metabolite knapsack:C00004508
6-Methoxyluteolin Metabolite knapsack:C00003885
Diosmetin 7-rutinoside Metabolite knapsack:C00004362
Eriodictyol Metabolite knapsack:C00000960
Genkwanin Metabolite knapsack:C00001043
Luteolin Metabolite knapsack:C00000674
Hesperetin 7-glucoside Metabolite knapsack:C00008297
Apigenin Metabolite knapsack:C00003817
Scutellarein Metabolite knapsack:C00003834
Apigenin 7,4'-dimethyl ether Metabolite knapsack:C00001016
Luteolin 3',7-diglucoside Metabolite knapsack:C00004290
Apigenin 7-rutinoside Metabolite knapsack:C00004156
Luteolin 4'-glucoside Metabolite knapsack:C00004276
6-Hydroxluteolin Metabolite knapsack:C00003884
Diosmetin 7-glucoside Metabolite knapsack:C00004357
Homoeriodictyol Metabolite knapsack:C00000969
Luteolin 4',7-diglucoside Metabolite knapsack:C00004294
Hesperetin 7-neohesperidoside Metabolite knapsack:C00000987
Luteolin 7-glucoside Metabolite knapsack:C00004266
Hesperetin Metabolite knapsack:C00000968
Hesperidin Metabolite knapsack:C00000970
Cosmosiin Metabolite knapsack:C00001017
5,7-Dimethoxyapigenin Metabolite pubchem.compound:161172
Scutellarein 7-glucuronide Metabolite knapsack:C00004221
4'-Methylluteolin Metabolite knapsack:C00001036
Acacetin Metabolite knapsack:C00003820
Dihydroquercetin Metabolite knapsack:C00000677
Catechin Metabolite knapsack:C00000947
Dihydrokaempferol Metabolite kegg.compound:C00974
Leucocyanidin Metabolite knapsack:C00007235
Pelargonidin Metabolite knapsack:C00007232
Epiafzelechin Metabolite knapsack:C00008805
Leucopelargonidin Metabolite knapsack:C00020638
Afzelechin Metabolite knapsack:C00000937
Cyanidin Metabolite kegg.compound:C05905
C 3-(6'-Cou)Glc Metabolite knapsack:C00006800
A1 Metabolite knapsack:C00006673
A4 Metabolite knapsack:C00007656
A3 Metabolite knapsack:C00006836
[Epicatechin-(4beta->8)]4-epicatechin Metabolite knapsack:C00009109
C 3-Glc-5-Glc Metabolite knapsack:C00002378
Procyanidin B2 Metabolite knapsack:C00009077
Epicatechin-(4beta->8)5-epicatechin Metabolite knapsack:C00002918
Cinnamtannin A1 Metabolite knapsack:C00009107
C 3-Glc Metabolite knapsack:C00002374
Cyanidin 3-sophoroside Metabolite knapsack:C00006658
C 3-Glc-2'-Xyl Metabolite knapsack:C00006657
(+)-epicatechin Metabolite knapsack:C00000956
C 3-(6'-Cou)Glc-5-Glc Metabolite knapsack:C00006819
Procyanidin C1 Metabolite knapsack:C00009098
C 3-(2'-Xyl-6'-Cou)Glc Metabolite knapsack:C00006802
A2 Metabolite knapsack:C00007655
A6 Metabolite knapsack:C00007658
A8 Metabolite knapsack:C00007659
A9 Metabolite knapsack:C00006838
A5 Metabolite knapsack:C00007657
A11 Metabolite knapsack:C00007570
A7 Metabolite knapsack:C00007660
C 3-(6'-Cou)Glc-5-(6'-Mal)Glc Metabolite knapsack:C00006824
A10 Metabolite knapsack:C00007661
Q 3-Ara Metabolite knapsack:C00005368
3-O-Methylquercetin Metabolite knapsack:C00004632
Q 7-Glc Metabolite knapsack:C00005382
Q 3-Glc-7-Glc Metabolite knapsack:C00005427
Q 3-(2'-Rha)Glc Metabolite knapsack:C00005412
Q 3-Rha Metabolite knapsack:C00005374
Q 3-Rha-7-Glc Metabolite knapsack:C00005431
Q 3-(6'-Rha)Glc Metabolite knapsack:C00005413
Q 3-(2'-Rha)Glc-7-Glc Metabolite knapsack:C00005470
Q 3-Rha-7-Rha Metabolite knapsack:C00005432
Q 3-Glc Metabolite knapsack:C00005373
Q 3-(6'-Rha)Glc-7-Rha Metabolite knapsack:C00005473
Q 3-Ara-7-Rha Metabolite knapsack:C00005420
Quercetin Metabolite knapsack:C00004631
Q 3-Glc-7-Rha Metabolite knapsack:C00005428
K 3-(6'-Glu)Glu-7-Rha Metabolite knapsack:C00005234
K 3-Rha-7-Glc Metabolite knapsack:C00005188
Kaempferol Metabolite kegg.compound:C05903
K 3-Gal Metabolite knapsack:C00005137
K 3-(6'-Cou)Glc Metabolite knapsack:C00005851
K 3-(6'-Glu)Glu Metabolite knapsack:C00005166
K 3-Rha Metabolite knapsack:C00005140
K 3-(2'-Rha)Glc Metabolite knapsack:C00005167
K 3-(6'-Rha)Glc Metabolite knapsack:C00005169
K 3-(6'-Rha)Gal Metabolite knapsack:C00005160
K 3-Glc Metabolite knapsack:C00005138
K 3-Gal-7-Rha Metabolite knapsack:C00005178
K 3-Glc-7-Rha Metabolite knapsack:C00005184
K 3-(6'-(2''-Rha)Rha)Gal Metabolite knapsack:C00005202
K 3-Glc-7-Glc Metabolite knapsack:C00005182
K 3-Rha-7-Rha Metabolite knapsack:C00005189
K 3-Ara Metabolite knapsack:C00005132
K 3-(2'-Rha)Glc-7-Rha Metabolite knapsack:C00005237
K 7-Glc Metabolite knapsack:C00005149
K 3-Ara-7-Rha Metabolite knapsack:C00005174
K 7-(2'-Rha)Glc Metabolite knapsack:C00005197
I 3-Ara-7-Rha Metabolite knapsack:C00005551
I 3-Ara Metabolite knapsack:C00005522
I 3-(6'-Rha)Glc Metabolite knapsack:C00005548
I 3-Rha Metabolite knapsack:C00005526
I 3-Rha-7-Glc Metabolite knapsack:C00005558
I 3-Glc Metabolite knapsack:C00005525
I 3-Glc-7-Rha Metabolite knapsack:C00005557
I 3-Rha-7-Rha Metabolite knapsack:C00005559
I 3-(2''Rha)Glc Metabolite knapsack:C00005547
Isorhamnetin Metabolite knapsack:C00004635
CHS GeneProduct kegg.genes:ath:AT5G13930
CHI GeneProduct kegg.genes:ath:AT3G55120
CHI GeneProduct kegg.genes:ath:AT5G66220
CHI GeneProduct kegg.genes:ath:AT5G05270


  1. The C-glycosylation of flavonoids in cereals. Brazier-Hicks M, Evans KM, Gershater MC, Puschmann H, Steel PG, Edwards R. J Biol Chem. 2009 Jul 3;284(27):17926–34. PubMed Europe PMC Scholia
  2. The flavonoid biosynthetic pathway in Arabidopsis: structural and genetic diversity. Saito K, Yonekura-Sakakibara K, Nakabayashi R, Higashi Y, Yamazaki M, Tohge T, et al. Plant Physiol Biochem. 2013 Nov;72:21–34. PubMed Europe PMC Scholia