[INFORMATION] This is mirror site of 'http://melonet-db.agbi.tsukuba.ac.jp/'

Melon (Cucumis melo L.) is an economically important crop of Cucurbitaceae family that is widely produced in the world. While melon is an important source of vitamins and minerals for human, it exhibits a wide range of naturally occurring genetic variation including both climacteric (ethylene-producing) and non-climacteric (non ethylene-producing) fruit ripening types. The Japanese muskmelon cultivar 'Earls favorite Harukei-3' is known for its excellent sweetness and rich aroma, and hence used for breeding of expensive (high-grade) muskmelon in Japan. Because of the economic importance in horticulture, we are using this 'Harukei-3' melon as a standard material for genetic and molecular biological studies. These include bioresource development such as artificially induced mutant population. However, to determine target gene(s) in translational research, it is often required to estimate gene function based on sequence information and/or gene expression patterns. Herein, we developed this web site designated as 'Melonet-DB'. Currently, several interactive tools are implemented as follows.

[1] Gene expression map viewer
This tool is designed to analyze tissue-specific gene expression pattern in 30 different tissues. This database is based on RNA-seq transcriptome dataset of 'Harukei-3' melon.

[2] Coexpression viewer
This tool is designed to analyze coexpression relationship between genes. This database is based on RNA-seq transcriptome dataset of 'Harukei-3' melon used in [1].

[3] Mutation analysis tools
These tools are aimed at to analyze whether nucleotide change(s) cause amino acid substitution, frame shift, or splicing variation within gene. Several formats including VCF are supported.

[4] Sequence analysis tools
These tools are designed to analyze DNA sequence. Blast or "oligo DNA mapper" identify homologous genes or genomic positions, respectively, based on query sequence. "CDS/Protein seq search" retrieves DNA or protein sequence based on gene ID.

[5] Primer design tools
These tools are designed to analyze primer sequence. "Primer finder" finds the best possible unique PCR primer pair based on target query sequence.

[6] Harukei-3 genome viewer
[under construction]

*In [1] and [2], we used the melon reference information published by Garcia-Mas et al. (PNAS, 2012 vol.109 11872-11877)

Developer/Administrator : Ryoichi Yano [University of Tsukuba, Lab of olericulture and floriculture]