pathways.citrusgenomedb.org
Citrus Cyc PathwaysA collection of model organism databases of metabolic pathways, including reactions, enzymes, genes and substrate compounds
http://pathways.citrusgenomedb.org/
A collection of model organism databases of metabolic pathways, including reactions, enzymes, genes and substrate compounds
http://pathways.citrusgenomedb.org/
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Citrus Cyc Pathways | pathways.citrusgenomedb.org Reviews
https://pathways.citrusgenomedb.org
A collection of model organism databases of metabolic pathways, including reactions, enzymes, genes and substrate compounds
pathways.citrusgenomedb.org
Dead-End Metabolite Finder
http://pathways.citrusgenomedb.org/dead-end-form.shtml
Search Genes, Proteins or RNAs. Google Search of this Site. Browse Enzyme Commission Ontology. Generate Metabolic Map Poster. DEMs) are metabolites that are either only consumed, or only produced, by the reactions within a given cellular compartment, including transport reactions. Although some DEMs are biologically accurate, many DEMs aid in identifying incomplete or incorrect curation of a PGDB. Include all molecules as potential DEMs. Limit DEM search to small molecules. Select One or More Databases:.
Chokepoint Reaction Finder
http://pathways.citrusgenomedb.org/chokepoint-form.shtml
Search Genes, Proteins or RNAs. Google Search of this Site. Browse Enzyme Commission Ontology. Generate Metabolic Map Poster. Include reactions found in human. Exclude reactions found in human. Include reactions catalyzed by more than one enzyme. Exclude reactions catalyzed by more than one enzyme. Limit to reactions found in multiple pathways. Definition: A chokepoint reaction. The definition of a chokepoint used here was derived from: Genome Research. Report Errors or Provide Feedback.
Comparative Analysis and Statistics
http://pathways.citrusgenomedb.org/comp-genomics
Search Genes, Proteins or RNAs. Google Search of this Site. Browse Enzyme Commission Ontology. Generate Metabolic Map Poster. Comparative Analysis and Statistics. To go to the Webinar page, where you can watch the Comparative and Omics Tools in BioCyc instructional videos. Note: In addition to reflecting differences in biology of different organisms, these statistics will reflect differences in the levels of curation, data availability, and completeness of the PGDBs for these organisms. Proteins that fac...
Glossary
http://pathways.citrusgenomedb.org/glossary.shtml
Search Genes, Proteins or RNAs. Google Search of this Site. Browse Enzyme Commission Ontology. Generate Metabolic Map Poster. 0-Centered Scale, Omics Viewer. 0-centered scale: implies that the numerical data of the Omics Viewer data file can contain positive and negative values. The value 0 is considered to be the center of the numerical values provided in the data file. 1-Centered Scale, Omics Viewer. A term that identifies one end of a single-stranded nucleic acid. From 5' to 3'), RNA. From the 3' end.
Cellular Overview
http://pathways.citrusgenomedb.org/overviewsWeb/celOv.shtml
Search Genes, Proteins or RNAs. Google Search of this Site. Browse Enzyme Commission Ontology. Generate Metabolic Map Poster. Pan left/right/up/down the entire diagram by holding the left mouse button, click on an object for more info, right-click (ctrl-click for Mac) for menu. Generate Bookmark for Cellular Overview. You can click and drag the bookmark:. On the bookmark toolbar of your browser. Into your favorite bookmarks menu. Into a new open window of your browser. Highlighting Pathway by Curation.
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CGD Tutorials | Citrus Genome Database
https://www.citrusgenomedb.org/tutorials
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Site Overview: An explanation of the features available through the Citrus Genome Database and how to effectively use the website. This tutorial gives a basic explanation of. All the features of GBrowse and how to use it through citrus genome database.
Species | Citrus Genome Database
https://www.citrusgenomedb.org/species
Skip to main content. Search Gene and Transcripts. Supported by USDA NIFA National Research Support Project 10 (2014-2019), NSF Plant Genome Research Program Award (2016-2019) and USDA NIFA Specialty Crop Research Program (2009-2014).
Citrus sinensis Unigene version 1.0 (Csv1) | Citrus Genome Database
https://www.citrusgenomedb.org/species/sinensis/unigene1.0
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Citrus sinensis Unigene version 1.0 (Csv1). Citrus sinensis Unigene version 1.0 (Csv1). Citrus sinensis ESTs 053010.fasta. This Unigene was constructed from 206,813 ESTs obtained from Genbank. The bioinformatic methods used to produce this Unigene can be found here. Number of reads: 206,813. Number of contigs: 13,856. Ace file from CAP3 assembly.
Database Overview | Citrus Genome Database
https://www.citrusgenomedb.org/node/656262
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Markers - 3,427. Genetic markers consisting of 1514 SNPs, 914 SSRs, 422 RAPD,. 246 SRAPs, 88 SCARs, 77 IRAP, 55 Indels,. Linkage maps with 3,334. Loci consisting of 50 genetic linkage maps covering all nine chromosomes and 1 association map. QTL loci from 8. Data from 23 measurements using 3 markers for 3 species. Citrus trifoliata unigene V1. GBrows...
Citrus sinensis genome v1.0 (JGI) | Citrus Genome Database
https://www.citrusgenomedb.org/species/sinensis/genome1.0
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Citrus sinensis genome v1.0 (JGI). Citrus sinensis genome v1.0 (JGI). Performed by JGI (v1.0). JGI Citrus sinensis assembly/annotation v1.0 (154). The following text comes from phytozome.org:. Genome Size / Loci. We aligned the sweet orange EST sequences using Brian Haass PASA pipeline which aligns ESTs to the best place in the genome via gmap, then ...
Tools | Citrus Genome Database
https://www.citrusgenomedb.org/tools
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Supported by grants from the USDA NIFA Specialty Crop Research Program (2009-2014) and USDA NIFA National Research Support Project 10 (2014-2019).
Citrus clementina | Citrus Genome Database
https://www.citrusgenomedb.org/species/clementina
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Mandarin, the second largest species in terms of worldwise citrus production, consists of Clementine (. And other diverse tangerine types. In contrast to sweet orange (. The following libraries are associated with this organism. Citrus clementina pistils cDNA-AFLP library. Select a KEGG report to view:. Select a GO report to view:. Supported by grant...
Citrus sinensis | Citrus Genome Database
https://www.citrusgenomedb.org/species/sinensis
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. The following libraries are associated with this organism. Mature peel (flavedo) cDNA subtraction library. Sweet orange leaf, infected with Xylella fastidiosa (stage 2 of 2). Parent Washington Navel Orange Red Scale-Infested Rind cDNA Library UCRCS11-2. Citrus apomitic embryos (subtractive cDNA library). Ridge pineapple sweet orange entire seedling.
User account | Citrus Genome Database
https://www.citrusgenomedb.org/user
About Citrus Genome Database. C clementina genome v1.0. C clementina genome v0.9. C sinensis genome v1.0. Tree Genetics and Genomes Journal Data Submission. Enter your Citrus Genome Database username. Enter the password that accompanies your username. Supported by grants from the USDA NIFA Specialty Crop Research Program (2009-2014) and USDA NIFA National Research Support Project 10 (2014-2019).
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Plant Biochemical and regulatory Pathway Home to RiceCyc, MaizeCyc, BrachyCyc, SorghumCyc, VitisCyc, FRagariaCyc and EucalypCyc and other plant species.
The pathways section in the Gramene databases is home for RiceCyc, MaizeCyc, BrachyCyc, SorghumCyc, VitisCyc, EucalyptusCyc, and FragariaCyc, the pathway databases for rice, maize, Bracypodium. Sorghum, grape, Eucalyptus and strawberry respectively. It also provides mirrors of pathway databases from Arabidopsis. Tomato, potato, pepper, coffee, Medicago. Visit Plant Metabolic Pathway Databases.
Citrus Cyc Pathways
Citrus Genome DB Home. Search genes, proteins or RNAs. Google search of this site. Browse Enzyme Commission Ontology. Welcome to the CitrusCyc Pathways Database. Part of the Citrus Genome Database. The following Cyc databases are available for browsing. Pathways were constructed using gene sequences from the C. clementina v1.0 genome assembly. Pathways were constructed using gene sequences from the C. sinensis v1.0 genome assembly. The pathways provided here for both Citrus clementina.
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