Plant Metabolic Pathways

RiceCyc# ver 3.3 
Oryza sativa japonica

Strain: Nipponbare
Browse | SummaryMore info
AraCyc* ver 12.0 
Arabidopsis thaliana
Strain: Columbia
Browse | SummaryMore info
EcoCyc* ver 19.0  
Escherichia coli
Strain: K-12 MG1655
Browse | SummaryMore info

SorghumCyc# ver 1.1  
Sorghum bicolor
Strain: BTx623
Browse | SummaryMore info

MedicCyc* ver 1.0.1 
Medicago truncatula, Barrelclover
Browse | SummaryMore info

MetaCyc* ver 19.0 
Reference Pathway Database
Strain: not applicable
Browse | SummaryMore info

MaizeCyc# ver 2.2 
Zea mays
Strain: B73
Browse | SummaryMore info

PoplarCyc* ver 7.0 
Populus trichocarpa (and other Populus species and hybrids)
Strain: n/a
Browse | SummaryMore info

PlantCyc* ver 9.0 
Plant Metabolic Pathway Database
Strain: not applicable
Browse | SummaryMore info

BrachyCyc# ver 2.0 
Brachypodium distachyon
Strain: Bd21
Browse | SummaryMore info

PotatoCyc* ver 1.0.1 
Solanum tuberosum, Potato
Strain: n/a
Browse | SummaryMore info

VitisCyc+ ver 3.18 
Vitis vinifera, Grape
Strain: n/a
Browse | SummaryMore info

CoffeaCyc* ver 1.1.1 
Coffea canephora, Coffee
Strain: n/a
Browse | SummaryMore info

EucalyptusCyc+ ver 1.7 
Eucalyptus grandis, Eucaplyptus
Strain: n/a
Browse | SummaryMore info

LycoCyc* ver 3.3 
Solanum lycopersicum, Tomato
Strain: n/a
Browse | SummaryMore info

FragariaCyc+ ver 2.19 
Fragaria vesca, Strawberry
Strain: n/a
Browse | SummaryMore info

*Mirror database.
#Curated and developed by the Gramene database.
+Developed by the Naithani and Jaiswal Labs.

Other Tools

Omics Viewer: Upload and view the realtime mappings of your datasets from microrray expression, proteomics, metabolomics on Pathway overview diagram
Comparative analysis: Compare data sets from two or more species for reactions, pathways, compounds, proteins, transporters and/or transcription units


Help Presents an overview on how to use the pathway database and lists explanations of field names.
Tutorial More in-depth than the help pages, use the tutorial for an example of using the database, see how it integrates other datasets, and get tips to increase your data search efficiency.

Quicklink for selected rice pathways

Auxin metabolism
Brassinosteroid metabolsm
Cytokinin metabolism
Ethylene biosynthesis from methionine
Gibberellin metabolism
Jasmonic acid biosynthesis
Salicylic acid biosynthesis
Pentose phosphate pathways
Secondary metabolic pathways
Starch biosynthesis
TCA cycle

ALL pathways

Useful external links

KEGG pathways
KEGG rice pathways
IUBMB Enzyme nomenclature
Brenda enzyme database
ENZYME at Expasy
Cellular Expression Profiling of Rice
Rice oligonucleotide array project