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Plant genome databases | Annotation

After the genome sequences of both Arabidopsis and rice are already available numerous plant genome sequencing are rapidly progressing and the near future a bouquet of plant genomes will be fully available. The ongoing projects circumvent both model…
GenBank
Dataset

GenBank

A comprehensive database that contains publicly available nucleotide sequences…

A comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual…

NCBI
Dataset

NCBI National Center for Biotechnology Information

Supplies several online resources for biological information. NCBI is a…

Supplies several online resources for biological information. NCBI is a web-based platform gathering information, tools, and functions that can be useful for researchers about biology. It offers user…

Ensembl
Dataset

Ensembl

A genomic interpretation system providing the most up-to-date annotations,…

A genomic interpretation system providing the most up-to-date annotations, querying tools and access methods for chordates and key model organisms. The REST server, which allows programs written in…

EBI
Dataset

EBI EMBL-EBI - The European Bioinformatics Institute

Supplies an access to several biological data resources. EBI is a database that…

Supplies an access to several biological data resources. EBI is a database that covers the entire range of biological sciences: raw DNA sequences to curated proteins, chemicals, structures, systems,…

RefSeq
Dataset

RefSeq Reference Sequence

Maintains and curates a publicly available database of annotated genomic,…

Maintains and curates a publicly available database of annotated genomic, transcript, and protein sequence records. The RefSeq project leverages the data submitted to the International Nucleotide…

Heliagene
Dataset

Heliagene

Provides visualization, querying tools for data mining and network exploration…

Provides visualization, querying tools for data mining and network exploration around Helianthus annuus. Heliagene offers a reference genome and companion resources to accelerate breeding programs.…

Gene
Dataset

Gene

Integrates gene-specific information from multiple data sources. NCBI Reference…

Integrates gene-specific information from multiple data sources. NCBI Reference Sequence (RefSeq) genomes for viruses, prokaryotes and eukaryotes are the primary foundation for Gene records in that…

Gramene
Dataset

Gramene

Offers comparative functional genomics in crops and model plant species.…

Offers comparative functional genomics in crops and model plant species. Gramene uses information generated from projects supported by public funds to improve the study of cross-species comparisons.…

The Apple…
Dataset

The Apple Genome and Epigenome

Gives access to the apple genome. The Apple Genome and Epigenome contains up to…

Gives access to the apple genome. The Apple Genome and Epigenome contains up to date gene annotation, transposable element (TE) annotation, genetic markers, DNA methylation data, small RNA data and…

Ricinus…
Dataset

Ricinus communis

A database which offers gene annotation of Ricinus communis, also known as…

A database which offers gene annotation of Ricinus communis, also known as Castorbean. The genome sequence assembly was searched for repetitive DNA using a combination of sequence alignment to…

MaizeGDB
Dataset

MaizeGDB Maize Genetics and Genomics Database

A highly curated, community-oriented database and informatics service to…

A highly curated, community-oriented database and informatics service to researchers focused on the crop plant and model organism Zea mays ssp. mays. Although some form of the maize community…

Thalassiosira…
Dataset

Thalassiosira pseudonana

A database offering assembly and gene annotation of the Thalassiosira…

A database offering assembly and gene annotation of the Thalassiosira pseudonana, a species of marine centric diatom. It is a model for diatom physiology studies, belongs to a genus widely…

PGSB PlantsDB
Dataset

PGSB PlantsDB Plant Genome and Systems Biology PlantsDB

A database framework for the comparative analysis and visualization of plant…

A database framework for the comparative analysis and visualization of plant genome data. PGSB PlantsDB has been updated with new data sets and types as well as specialized tools and interfaces to…

Manihot…
Dataset

Manihot esculenta

Offers a gene annotation of Manihot esculenta also known as cassava. The…

Offers a gene annotation of Manihot esculenta also known as cassava. The Manihot esculenta database is an Illumina-based assembly from the same genotype, AM560-2. The scaffolds have been anchored…

TAIR
Dataset

TAIR The Arabidopsis Information Resource

Maintains a database of genetic and molecular biology data for the model higher…

Maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. Data available from TAIR includes the complete genome sequence along with gene structure,…

Triticum Urartu
Dataset

Triticum Urartu

A database which offers gene annotation of triticum urartu is the diploid…

A database which offers gene annotation of triticum urartu is the diploid progenitor of the bread wheat A-genome. Also known as red wild einkorn, is a diploid species whose genome is the A genome of…

Carica papaya
Dataset

Carica papaya

A database which offers gene annotation of Carica papaya. The papaya genome is…

A database which offers gene annotation of Carica papaya. The papaya genome is three times the size of the Arabidopsis genome, but contains fewer genes, including significantly fewer disease…

Aegilops…
Dataset

Aegilops tauschii

A database which offers assembly and gene annotation of Aegilops tauschii, also…

A database which offers assembly and gene annotation of Aegilops tauschii, also known as Tausch's goatgrass. The diploid progenitor of the bread wheat D-genome provides important evolutionary…

Phytozome
Dataset

Phytozome

Provides a centralized hub for plant genome and gene family data and analysis.…

Provides a centralized hub for plant genome and gene family data and analysis. Phytozome is a comparative hub which provides a view of the evolutionary history of every plant gene at the level of…

CGD
Dataset

CGD Cucurbit Genomics Database

A database which offers gene annotation of cucurbit. This base offers the…

A database which offers gene annotation of cucurbit. This base offers the genome of Melon (Cucumis melo), Cucumber (Cucumis sativus), Watermelon (Citrullus lanatus), Pumpkin (Cucurbita maxima). The…

SoyKB
Dataset

SoyKB Soybean Knowledge Base

A comprehensive web resource developed for bridging soybean translational…

A comprehensive web resource developed for bridging soybean translational genomics and molecular breeding research. It provides information for six entities including genes/proteins, microRNAs/sRNAs,…

PlantTribes
Dataset

PlantTribes

Stores a global classification of genes from five sequenced plant genomes:…

Stores a global classification of genes from five sequenced plant genomes: Arabidopsis thaliana, Carica papaya, Medicago truncatula, Populus trichocarpa and Oryza sativa. PlantTribes is a plant gene…

Panzea
Dataset

Panzea

The public web site of the Molecular and Functional Diversity in the Maize…

The public web site of the Molecular and Functional Diversity in the Maize Genome project. Panzea provides access to the genotype, phenotype and polymorphism data produced by the project through…

Ensembl Genomes
Dataset

Ensembl Genomes

An integrating resource for genome-scale data from non-vertebrate species.

An integrating resource for genome-scale data from non-vertebrate species.

SeedGenes
Dataset

SeedGenes

This project deals with genes that exhibit a seed phenotype when disrupted by a…

This project deals with genes that exhibit a seed phenotype when disrupted by a loss-of-function mutation.

PGDD
Dataset

PGDD Plant Genome Duplication Database

A public database to identify and catalog plant genes in terms of intragenome…

A public database to identify and catalog plant genes in terms of intragenome or cross-genome syntenic relationships.

SoyBase
Dataset

SoyBase

A comprehensive repository for professionally curated genetics, genomics and…

A comprehensive repository for professionally curated genetics, genomics and related data resources for soybean.

TOMATOMICS
Dataset

TOMATOMICS

Provides an access to the information on the cDNA clone resources, full-length…

Provides an access to the information on the cDNA clone resources, full-length mRNA sequences, gene structures, expression profiles and functional annotations of genes of Solanum lycopersicum…

NMPDR
Dataset

NMPDR National Microbial Pathogen Data Resource

Compiles information about NIAID Category B priority pathogens, including the…

Compiles information about NIAID Category B priority pathogens, including the food and water-borne diarrheagenic bacteria. NMPDR collects multiple data about pathogenic microorganisms and includes a…

RiceGAAS
Dataset

RiceGAAS Rice Genome Automated Annotation System

A rice genome automated annotation system. RiceGAAS has the following…

A rice genome automated annotation system. RiceGAAS has the following functional features: (i) collection of rice genome sequences from GenBank; (ii) execution of gene prediction and homology search…

GreenPhylDB
Dataset

GreenPhylDB

A web resource designed for comparative and functional genomics in plants.…

A web resource designed for comparative and functional genomics in plants. GreenPhylDB contains a catalogue of gene families based on gene predictions of genomes, covering a broad taxonomy of green…

BIG Data Center
Dataset

BIG Data Center

A data repository for constructing and maintaining biological databases to aid…

A data repository for constructing and maintaining biological databases to aid translation of big data into big discover. The BIG Data Center takes full advantages of valuable resources and…

EURISCO
Dataset

EURISCO European Search Catalogue for Plant Genetic Resources

Provides information about 1.8 million crop plant accessions comprising 6233…

Provides information about 1.8 million crop plant accessions comprising 6233 genera and 41 649 species. Besides the classical passport data, EURISCO database also provides phenotypic information…

LIS
Dataset

LIS Legume Information System

A genomic data portal (GDP) for the legume family. LIS provides access to…

A genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there…

LegumeIP
Dataset

LegumeIP

Hosts large-scale genomics and transcriptomics data and provides integrative…

Hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes. Our recent updates in LegumeIP 2.0 include…

LSD
Dataset

LSD Leaf Senescence Database

A database of leaf senescence to collect SAGs, mutants, phenotypes and…

A database of leaf senescence to collect SAGs, mutants, phenotypes and literature references.

AgBase
Dataset

AgBase

Provides resources to facilitate modeling of functional genomics data and…

Provides resources to facilitate modeling of functional genomics data and structural and functional annotation of agriculturally important animal, plant, microbe and parasite genomes.

PRGdb
Dataset

PRGdb Plant Resistance Genes database

A comprehensive resource on resistance genes (R-genes), a major class of genes…

A comprehensive resource on resistance genes (R-genes), a major class of genes in plant genomes that convey disease resistance against pathogens.

RiceWiki
Dataset

RiceWiki

A wiki-based, publicly editable and open-content platform for community…

A wiki-based, publicly editable and open-content platform for community curation of rice genes.

Plant DNA…
Dataset

Plant DNA C-values Database

Provides information on nuclear DNA contents across land plants and some algal…

Provides information on nuclear DNA contents across land plants and some algal groups.

PEDANT
Dataset

PEDANT

Provides exhaustive automatic analysis of genomic sequences by a large variety…

Provides exhaustive automatic analysis of genomic sequences by a large variety of bioinformatics tools. PEDANT is a database that includes (i) integration with the BioRSTM data retrieval system which…

GrainGenes
Dataset

GrainGenes

An international database for genetic and genomic information about Triticeae…

An international database for genetic and genomic information about Triticeae species (wheat [Triticum aestivum], barley [Hordeum vulgare], rye [Secale cereale], and their wild relatives) and oat…

GabiPD
Dataset

GabiPD GABI Primary Database

Constitutes a repository and analysis platform for a wide array of…

Constitutes a repository and analysis platform for a wide array of heterogeneous data from high-throughput experiments in several plant species.

Oryzabase
Dataset

Oryzabase

Creates a comprehensive view of rice (Oryza sativa) as a model monocot plant by…

Creates a comprehensive view of rice (Oryza sativa) as a model monocot plant by integrating biological data with molecular genomic information.

PlanMine
Dataset

PlanMine

Aims to provide an easily accessible and minable repository of general…

Aims to provide an easily accessible and minable repository of general planarian sequence data. Our dual mission objective is to first, provide opportunities for comparing and mining planarian…

IC4R
Dataset

IC4R Information Commons for Rice

A rice knowledgebase featuring adoption of an extensible and sustainable…

A rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and…

FLAGdb++
Dataset

FLAGdb++

Helps biologists to find the flanking insertion sites (FSTs) that interrupt the…

Helps biologists to find the flanking insertion sites (FSTs) that interrupt the genes in which they are interested. The FLAGdb information system was developed with the aim of using whole plant…

Cannabis sativa
Dataset

Cannabis sativa

A database which offers gene annotation of Cannabis sativa, also know under the…

A database which offers gene annotation of Cannabis sativa, also know under the name of Marijuana. The draft genome and transcriptome of C. sativa has been presented and compared with the genomes and…

MOsDB
Dataset

MOsDB MIPS Rice (Oryza sativa) DataBase

A resource for publicly available sequences of the rice (Oryza sativa L.)…

A resource for publicly available sequences of the rice (Oryza sativa L.) genome. MOsDB provides all available data about rice genes and genomics, including (in the future) mutant information and…

GeneFarm
Dataset

GeneFarm

The purpose of the project is to obtain homogeneous, reliable, documented and…

The purpose of the project is to obtain homogeneous, reliable, documented and traceable annotations for Arabidopsis nuclear genes and gene products, and to enter them into an added-value database.…

GPI
Dataset

GPI GenoPlante-Info

Aims at developing genome analysis programs for crop species (corn, wheat,…

Aims at developing genome analysis programs for crop species (corn, wheat, rapeseed, sunflower and pea) and model plants (Arabidopsis and rice).

MarpoDB
Dataset

MarpoDB

Represents an open registry for efficient identification of putative Marchantia…

Represents an open registry for efficient identification of putative Marchantia polymorpha genetic parts. MarpoDB integrates crossreferencing to the M. polymorpha Tak-1 community genome dataset. This…

VigGS
Dataset

VigGS Vigna Genome Server

A genome database of the genus Vigna based on the recently sequenced azuki bean…

A genome database of the genus Vigna based on the recently sequenced azuki bean genome, which incorporates annotated exon-intron structures, along with evidence for transcripts and proteins,…

BASC
Dataset

BASC

This public resource hosts information on Brassica species.

This public resource hosts information on Brassica species.

Coffee Genome…
Dataset

Coffee Genome Hub

An integrative genome information system that allows centralized access to…

An integrative genome information system that allows centralized access to genomics and genetics data and analysis tools to facilitate translational and applied research in coffee. The hub relies on…

TropGeneDB
Dataset

TropGeneDB

A database that manages genomic, genetic and phenotypic information about…

A database that manages genomic, genetic and phenotypic information about tropical crops.

MODEM
Dataset

MODEM Multi-Omics Data Envelopment and Mining in maize

A comprehensive database to collect maize multidimensional omics data including…

A comprehensive database to collect maize multidimensional omics data including genomic variation, transcriptomic quantification, metabolic identification and phenotypic traits from cellular to…

CAP
Dataset

CAP Citrus sinensis annotation project

Collects information about genomic and transcriptomic data. CAP aims to…

Collects information about genomic and transcriptomic data. CAP aims to simplify understanding about the genome structure and function of sweet orange by using annotation. The database contains…

NIASGBdb
Dataset

NIASGBdb

Consists of a genetic resource database and a plant diseases database, linked…

Consists of a genetic resource database and a plant diseases database, linked by a web retrieval database.

pico-PLAZA
Dataset

pico-PLAZA

A web-based resource for algal genomics that combines different data types with…

A web-based resource for algal genomics that combines different data types with intuitive tools to explore genomic diversity, perform integrative evolutionary sequence analysis and study gene…

RiceGeneThreshe…
Dataset

RiceGeneThresher

A public online resource for mining genes underlying genome regions of interest…

A public online resource for mining genes underlying genome regions of interest or quantitative trait loci (QTL) in rice genome.

MAGIC
Dataset

MAGIC

A maize expression compendium, making use of an integration methodology and a…

A maize expression compendium, making use of an integration methodology and a consistent probe to gene mapping based on the 5b.60 sequence release of Zea mays.

OryzaGenome
Dataset

OryzaGenome

Provides genome sequence/variant information for wild Oryza species together…

Provides genome sequence/variant information for wild Oryza species together with that of several cultivated strains, in close collaboration with Oryzabase, ensuring easy access to information about…

SIFGD
Dataset

SIFGD Setaria italica Functional Genomics Database

Provides search and analysis tools for bioinformatics analyses of gene function…

Provides search and analysis tools for bioinformatics analyses of gene function or regulatory modules. SIFGD was designed to integrate existing data from publications, to improve the proportion of…

CottonGen
Dataset

CottonGen

A curated and integrated web-based relational database providing access to…

A curated and integrated web-based relational database providing access to publicly available genomic, genetic and breeding data for cotton. CottonGen supercedes CottonDB and the Cotton Marker…

GDR
Dataset

GDR Genome Database for Rosaceae

A central repository of curated and integrated genetics and genomics data of…

A central repository of curated and integrated genetics and genomics data of Rosaceae, an economically important family which includes apple, cherry, peach, pear, raspberry, rose and strawberry.

OryGenesDB
Dataset

OryGenesDB

A search database for rice reverse genetics. OryGenesDB contains flanking…

A search database for rice reverse genetics. OryGenesDB contains flanking sequence tags of various mutagens and functional genomics data, collected from both international insertion collections and…

GCP
Dataset

GCP Generation Challenge Programme

An online resource documenting stress-responsive genes comparatively across…

An online resource documenting stress-responsive genes comparatively across plant species. This public resource is a compendium of protein families, phylogenetic trees, multiple sequence alignments…

Citrus…
Dataset

Citrus Greening Solutions

Provides gene set of the D. citri which includes 530 manually curated genes and…

Provides gene set of the D. citri which includes 530 manually curated genes and about 20,000 genes. Citrus Greening Solutions offers solution that uses a therapeutic delivery strategy and citrus…

A A A
OmicsDI
Dataset

OmicsDI Omics Discovery Index

Permits to access, discover and disseminate omics data sets. OmicsDI is an…

Permits to access, discover and disseminate omics data sets. OmicsDI is an open-source platform that can integrate proteomics, genomics, metabolomics and transcriptomics data sets. This platform…

HopBase
Dataset

HopBase

Provides genomics resources specifically focused on one plant system, thereby…

Provides genomics resources specifically focused on one plant system, thereby providing content aimed at researchers of hop. HopBase is an online resource that offers genes models of Humulus lupulus.…

Solanum…
Dataset

Solanum pennellii

Provides a comprehensive nanopore sequencing dataset with a median fragment…

Provides a comprehensive nanopore sequencing dataset with a median fragment size of 11,979 bp for the wild tomato species Solanum pennellii featuring an estimated genome size of ca 1.0 to 1.1 Gbases.…

JCDB
Dataset

JCDB Jatropha curcas DataBase

A database which offers gene annotation of Jatropha curcas, also known as…

A database which offers gene annotation of Jatropha curcas, also known as Barbados nut, purging nut or physic nut. Jatropha curcas is currently attracting much attention as a plant with high…

Phoenix…
Dataset

Phoenix dactylifera

Offers assembly and gene annotation of Phoenix dactylifera also known as date…

Offers assembly and gene annotation of Phoenix dactylifera also known as date or date palm, which is in the Arecaceae family. The database reports a genome assembly for an elite variety (Khalas),…

Sinbase
Dataset

Sinbase

A web-based database with comprehensive sesame (Sesamum indicum L.) genomic,…

A web-based database with comprehensive sesame (Sesamum indicum L.) genomic, genetic and comparative genomic information. Sinbase includes sequences of assembled sesame pseudomolecular chromosomes,…

MTGD
Dataset

MTGD Medicago truncatula genome database

A web_based resource providing genome data to the community Medicago…

A web_based resource providing genome data to the community Medicago truncatula, a close relative of alfalfa (Medicago sativa), is a model legume used for studying symbiotic nitrogen fixation,…

LAILAPS
Dataset

LAILAPS The Plant Science Search Engine

An information retrieval system designed to link plant genomic data in the…

An information retrieval system designed to link plant genomic data in the context of phenotypic attributes for a detailed forward genetic research. LAILAPS comprises around 65 million indexed…

HRGD
Dataset

HRGD Heterosis-Related Gene Database

A data platform for query, visualization, analysis, and retrieving…

A data platform for query, visualization, analysis, and retrieving heterosis-associated genes. The database contains information concerning over 5,000 differentially expressed genes among the…

Bolbase
Dataset

Bolbase

A database for the Brassica oleracea genome data and comparative genomics…

A database for the Brassica oleracea genome data and comparative genomics information. The whole genome of B. oleracea is available, including nine fully assembled chromosomes and 1,848 scaffolds,…

STPD
Dataset

STPD Salinity Tolerant Poplar Database

An integrative database for salt-tolerant poplar genome biology. Currently the…

An integrative database for salt-tolerant poplar genome biology. Currently the STPD contains Populus euphratica genome and its related genetic resources. P. euphratica, with a preference of the salty…

BambooGDB
Dataset

BambooGDB

A bamboo genome database with comprehensive functional annotation and…

A bamboo genome database with comprehensive functional annotation and extensible analysis platform.

Shigella…
Dataset

Shigella dysenteriae

Presents the whole sequenced genome of Shigella dysenteriae. The Shigella…

Presents the whole sequenced genome of Shigella dysenteriae. The Shigella bacteria cause bacillary dysentery, 15 which remains a significant threat to public health. Shigella dysenteriae serotype 1…

euGenes
Dataset

euGenes

A genome information system and database that provides a common summary of…

A genome information system and database that provides a common summary of eukaryote genes and genomes.

TIGR Maize…
Dataset

TIGR Maize Database

A repository of publicly available maize genomic sequences.

A repository of publicly available maize genomic sequences.

PlantGDB
Dataset

PlantGDB

A genomics database encompassing sequence data for green plants (Viridiplantae).

A genomics database encompassing sequence data for green plants (Viridiplantae).

SGN
Dataset

SGN SOL Genomics Network

A Clade Oriented Database (COD) containing genomic, genetic, phenotypic and…

A Clade Oriented Database (COD) containing genomic, genetic, phenotypic and taxonomic information for plant genomes.

PGP
Dataset

PGP Plant Genomics and Phenomics Research Data Repository

An infrastructure to comprehensively publish plant research data. PGP covers in…

An infrastructure to comprehensively publish plant research data. PGP covers in particular cross-domain datasets that are not being published in central repositories because of its volume or…

Ricebase
Dataset

Ricebase

An integrative genomic database for rice (Oryza sativa) with an emphasis on…

An integrative genomic database for rice (Oryza sativa) with an emphasis on combining datasets in a way that maintains the key links between past and current genetic studies. Ricebase includes DNA…

SorghumFDB
Dataset

SorghumFDB Sorghum functional genomics database

A platform for genome functional annotations and multi-dimensional network…

A platform for genome functional annotations and multi-dimensional network analyses in Sorghum (Sorghum bicolor [L.] Moench). SorghumFDB encompassed most information, such as various annotations of…

Araport
Dataset

Araport Arabidopsis Information Portal

An online resource for plant biology research. Araport houses the Arabidopsis…

An online resource for plant biology research. Araport houses the Arabidopsis thaliana genome sequence and associated annotation. It was conceived as a framework that allows the research community to…

Hevea…
Dataset

Hevea brasiliensis

A database which offers gene annotation of Hevea brasiliensis. The rubber tree…

A database which offers gene annotation of Hevea brasiliensis. The rubber tree is the major commercial source of natural rubber. The transcriptome was sequenced from vegetative shoot apex yielding…

OrchidBase
Dataset

OrchidBase

Hosts a comprehensive collection of Orchidaceae floral transcriptomes. The…

Hosts a comprehensive collection of Orchidaceae floral transcriptomes. The OrchidBase is a collection of 37,979,342 sequence reads collected from 11 in-house Phalaenopsis orchid cDNA libraries. Among…

PGDBj
Dataset

PGDBj Plant Genome DataBase Japan

Aims to integrate plant genome-related information from databases (DBs) and the…

Aims to integrate plant genome-related information from databases (DBs) and the literature. The PGDBj is comprised of three component DBs and a cross-search engine, which provides a seamless search…

PartiGeneDB
Dataset

PartiGeneDB

Provides a comprehensive resource facilitating comparative analyses.…

Provides a comprehensive resource facilitating comparative analyses. PartiGeneDB is a publicly available database resource allows researchers to access the partial genomes of organisms that may not…

Cyanidioschyzon…
Dataset

Cyanidioschyzon merolae

A database offering the genome sequence of the ultrasmall unicellular red alga…

A database offering the genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae. This project presents the complete sequence of 16,546,747 nucleotides covering 100% of the 20…

AtGDB
Dataset

AtGDB

Includes extensive tools for visualization and further analysis. AtGDB is a…

Includes extensive tools for visualization and further analysis. AtGDB is a relational database with an elaborate Web interface designed to allow users to browse the genome and query by sequence…

TGRD
Dataset

TGRD Tomato Genomic Resources Database

Allows interactive browsing of tomato genes, micro RNAs, simple sequence…

Allows interactive browsing of tomato genes, micro RNAs, simple sequence repeats (SSRs), important quantitative trait loci and Tomato-EXPEN 2000 genetic map altogether or separately along twelve…

GBIS
Dataset

GBIS Genebank Information System

Allows to retrieve information from The German Federal ex situ Genebank of…

Allows to retrieve information from The German Federal ex situ Genebank of Agricultural and Horticultural Crop Species. GBIS is a database developed in the frame of fusion of the collection of former…

WFRGdb
Dataset

WFRGdb The Wood-Formation Related Genes database

An integrated database of Wood-Formation Related Genes (WFRGs) from all plant…

An integrated database of Wood-Formation Related Genes (WFRGs) from all plant species whose genomes are available. WFRGdb will provide a comprehensive and robust platform allowing researchers…

KIR
Dataset

KIR Kiwifruit Information Resource

Hosts a wide range of kiwifruit genomics and genetics datasets based on the…

Hosts a wide range of kiwifruit genomics and genetics datasets based on the latest and most accurate genome annotation. KIR aims to be a comprehensive online platform for users to search, visualize,…

DroughtDB
Dataset

DroughtDB

A manually curated compilation of molecularly characterized genes that are…

A manually curated compilation of molecularly characterized genes that are involved in drought stress response. DroughtDB includes information about the originally identified gene, its physiological…

GraP
Dataset

GraP Platform of Functional genomics analysis in Gossypium raimondii

Provides an integration, multi-dimensional analysis and visualization platform…

Provides an integration, multi-dimensional analysis and visualization platform for cotton functional genomics research. GraP includes updated functional annotation, gene family classifications,…

LOTUS-DB
Dataset

LOTUS-DB

Provides comprehensive information on the annotation, gene function and…

Provides comprehensive information on the annotation, gene function and expression for the sacred lotus. The information will facilitate users to efficiently query and browse genes, graphically…

FR database
Dataset

FR database

A database using manual curation from 38 423 articles published before 1 April…

A database using manual curation from 38 423 articles published before 1 April 2014, and integrating protein interactomes and several transcriptome datasets. FR database provides detailed information…

AceDB
Dataset

AceDB A C. elegans DataBase

Provides a custom database kernel, with a non-standard data model designed…

Provides a custom database kernel, with a non-standard data model designed specifically for handling scientific data flexibly, and a graphical user interface with many specific displays and tools for…

eGOB
Web

eGOB eukaryotic Gene Order Browser

Views any eukaryotic gene and its genomic environment in different species.…

Views any eukaryotic gene and its genomic environment in different species. eGOB is an online tool that offers informations on the order of protein and non-coding RNA (ncRNA) genes of 74 different…

WheatGenome.inf…
Dataset

WheatGenome.info

An integrated database resource which includes multiple web-based applications.…

An integrated database resource which includes multiple web-based applications. These include a GBrowse2-based wheat genome viewer with BLAST search portal, TAGdb for searching wheat…

RadishBase
Dataset

RadishBase

A genomics and genetics database of radish. RadishBase contains radish…

A genomics and genetics database of radish. RadishBase contains radish mitochondrial genome sequences, expressed sequence tag (EST) and unigene sequences and annotations, biochemical pathways,…

RAP-DB
Dataset

RAP-DB Rice Annotation Project Database

A comprehensive set of gene annotations for the genome sequence of rice, Oryza…

A comprehensive set of gene annotations for the genome sequence of rice, Oryza sativa (japonica group) cv. Nipponbare.

SiESTa
Dataset

SiESTa Silene EST annotation database

Provides a high quality expressed sequence tag (EST) database which hosts…

Provides a high quality expressed sequence tag (EST) database which hosts valuable resources for molecular ecologists studying Caryophyllaceae, particularly for the genus Silene. SiESTa provides the…

BRAD
Dataset

BRAD BRAssica Database

A database for Brassica crops at the whole genome scale. BRAD provides several…

A database for Brassica crops at the whole genome scale. BRAD provides several datasets, like the complete Brassica A genome sequence from Brassica rapa (B. rapa), coming from de novo assembly of…

CarrotDB
Web

CarrotDB

A Web-based genomic and transcriptomic database for D. carota. It offers the…

A Web-based genomic and transcriptomic database for D. carota. It offers the tools of Genome Map and Basic Local Alignment Search Tool.

HelmCoP
Dataset

HelmCoP Helminth Control and Prevention

An online resource built by integrating functional, structural and comparative…

An online resource built by integrating functional, structural and comparative genomic data from plant, animal and human helminthes, to enable researchers to develop strategies for drug, vaccine and…

MorusDB
Dataset

MorusDB Morus genome database

Provides important genomic resources for scientists working with mulberry and…

Provides important genomic resources for scientists working with mulberry and other Moraceae species, which include many important fruit crops.

CGKB
Dataset

CGKB Cowpea Genespace/Genomics Knowledge Base

Leverages modern molecular genetic tools for gene discovery and cowpea…

Leverages modern molecular genetic tools for gene discovery and cowpea improvement. CGKB is an integrated and annotated resource for cowpea genespace sequences (GSS) with features of homology-based…

CerealsDB
Dataset

CerealsDB

An online resource containing a range of genomic datasets for wheat (Triticum…

An online resource containing a range of genomic datasets for wheat (Triticum aestivum) that will assist plant breeders and scientists to select the most appropriate markers for marker assisted…

USDA Public…
Dataset

USDA Public Citrus Genome Database

Hosts data sets of 454 genome sequencing of citrus, the library of unique…

Hosts data sets of 454 genome sequencing of citrus, the library of unique citrus repetitive sequences, and a catalog of assembled transposable element (TEs) and citrus simple sequence repeats (SSRs).…

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PMPj-Blast
Dataset

PMPj-Blast

Offers data from were obtained from PMPj. PMPj-Blast is a database of…

Offers data from were obtained from PMPj. PMPj-Blast is a database of nucleotide sequences of Expressed Sequence tags (ESTs), cDNAs and oligo DNA microarray probes for Lotus japonicus and Arabidopsis…

KATANA
Web

KATANA Kazusa Arabidospis Thaliana Annotation Abstract

Facilitates user access and queries of available Arabidopsis thaliana genomic…

Facilitates user access and queries of available Arabidopsis thaliana genomic information. KATANA is a web-based tool that redirects user’s query to the original databases. Data thus obtained could…

FuLoja
Dataset

FuLoja

Provides Lotus japonicus full-length cDNA Databases. FuLoja is a resource where…

Provides Lotus japonicus full-length cDNA Databases. FuLoja is a resource where user can search full-length cDNA sequences analysed with InterPro. Blast search is available.

DOGAN
Dataset

DOGAN

Provides a genome database of microorganisms sequenced at National Institute of…

Provides a genome database of microorganisms sequenced at National Institute of Technology and Evaluation (NITE).

iGenomes
Dataset

iGenomes

Provides a set of reference sequences and annotation files for common…

Provides a set of reference sequences and annotation files for common organisms. iGenomes has been constructed with data from Ensembl, NCBI and UCSC. Chromosome names have been simplified to be…

Melonomics
Dataset

Melonomics

A database which offers gene annotation of Cucumis melo. Melon is a cucurbit…

A database which offers gene annotation of Cucumis melo. Melon is a cucurbit with high economic impact and a well-known and appreciated product in Europe. The objectives of the Melonomics project are…

Ostreococcus…
Dataset

Ostreococcus tauri

A database offering the genome sequence of the Ostreococcus tauri, unicellular…

A database offering the genome sequence of the Ostreococcus tauri, unicellular species of marine green alga. The assembly contains 125,586 reads assembled into 20 chromosomes and 98 scaffolds. This…

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GnpIS
Dataset

GnpIS Genoplante Information System

A multispecies integrative information system dedicated to plant and fungi…

A multispecies integrative information system dedicated to plant and fungi pests. GnpIS bridges genetic and genomic data, allowing researchers access to both genetic information (e.g. genetic maps,…

Banana Genome…
Dataset

Banana Genome Hub

Aggregates for unified access various information systems and analytical tools…

Aggregates for unified access various information systems and analytical tools that were not developed for one specific crop. The Banana Genome Hub is based on Tripal (a construction toolkit for…

ASRGDB
Dataset

ASRGDB Arabidopsis stress responsive gene database

Provides a powerful mean for manipulation, comparison, search, and retrieval of…

Provides a powerful mean for manipulation, comparison, search, and retrieval of records describing the nature of various stress responsive genes in Arabidopsis thaliana. The database is based…

Bgi-Ris
Dataset

Bgi-Ris

An integrated information resource and comparative analysis workbench for rice…

An integrated information resource and comparative analysis workbench for rice genomes.

AGNS
Dataset

AGNS Arabidopsis GeneNet Supplementary database

Provides access to description of the functions of the known Arabidopsis genes…

Provides access to description of the functions of the known Arabidopsis genes at different levels of mRNA, protein, cell, tissue and ultimately at the levels of the organ and organism and in both…

INSDC
Dataset
Rice Genome…
Nontypeable

Rice Genome Annotation Project

Provides annotation data and sequence for the rice genome.

Provides annotation data and sequence for the rice genome.

SoyGD
Dataset

SoyGD Soybean Genome Database

Combines Perl MySQL database programming with Gbrowse to provide an integrated…

Combines Perl MySQL database programming with Gbrowse to provide an integrated way of presenting soybean genomic features.

RGKbase
Dataset