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 chromosomes of tomato in a single window. TGRD is created using sequence of the cultivar Heinz 1706. High quality single nucleotide polymorphic (SNP) sites between the genes of Heinz 1706 and the wild tomato S. pimpinellifolium LA1589 are also included. Genes are classified into different families. 5'-upstream sequences (5'-US) of all the genes and their tissue-specific expression profiles are provided. Sequences of the microRNA loci and their putative target genes are catalogued. Genes and 5'-US show presence of SSRs and SNPs. SSRs located in the genomic, genic and 5'-US can be analysed separately for the presence of any particular motif. Primer sequences for all the SSRs and flanking sequences for all the genic SNPs have been provided. TGRD is a user-friendly web-accessible relational database and uses CMAP viewer for graphical scanning of all the features.

User report

0 user reviews

0 user reviews

No review has been posted.

TGRD forum

No open topic.

TGRD classification

  • Plants

TGRD specifications

Restrictions to use:
None
Database management system:
MySQL
Data access:
Web user interface
Programming languages:
Javascript, PHP
Community driven:
No
User data submission:
Not allowed

Publications

  • (Suresh et al., 2014) Tomato genomic resources database: an integrated repository of useful tomato genomic information for basic and applied research. PloS one.
    PMID: 24466070

TGRD support

Maintainer

Credits

Institution(s)

National Institute of Plant Genome Research, New Delhi, India

Funding source(s)

This work was financially supported by the core grant of National Institute of Plant Genome Research, New Delhi, India and the Department of Biotechnology, Government of India.

Related Genome data tools

Most Recent Tools

PhagesDB PhagesDB

PhagesDB

Collects and shares data, pictures, protocols, and analysis tools associated…

Collects and shares data, pictures, protocols, and analysis tools associated with the discovery, sequencing, and characterization of mycobacteriophages viruses that infect the Mycobacteria. PhagesDB…

AtGDB AtGDB

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…

Giant Panda Database Giant Panda Database

Giant Panda Database

Presents the entire panda genome sequence, as well as the annotation…

Presents the entire panda genome sequence, as well as the annotation information such as gene structure and functions, non-coding RNAs and repeat elements. The Giant Panda Database is illustrated in…

959 Nematode Genomes 959 Nematode Genomes

959 Nematode Genomes

Tracks sequencing projects that have been proposed, in progress, or completed.…

Tracks sequencing projects that have been proposed, in progress, or completed. 959 Nematode Genomes is a community-curated semantic wiki coordinate the sequencing efforts of individual labs to…

Most Popular Tools

EuMicrobedbLite EuMicrobedbLite

EuMicrobedbLite

A light weight comprehensive genome resource and sequence analysis platform for…

A light weight comprehensive genome resource and sequence analysis platform for oomycete organisms. EuMicrobedbLite is a successor of the VBI Microbial Database (VMD) that was built using the Genome…

16 related tools

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.