Online

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.

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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.

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