Available Tools
RNA-Seq data analysis using Diane
Analyse your own transcriptomics data
Primer Designer
Primer Designer allows users to design new target-specific primers in one step as well as to check the specificity of pre-existing primers with BLAST.
Gene search
Search for a gene by name, location, functional annotation keywords...
Mosaics
Visualize and explore chromosome structure paint with ancestral/parental origins
Large structural variations
Explore large chromosome structural variations in Musa diversity
JBrowse
Visualize data using an interactive genome browser.
Gigwa
Gigwa is a web-based tool for the exploration of large amounts of genotyping data.
Blast Search
Search for highest similarity for your sequence of interest.
Locus Converter
This tool allows to convert locus tags names between version of the genome assemblies. It supports conversion between v1 and v2 of the DH-Pahang assembly. You can search either by legacy identifiers (GSMUA_Achr3G27160_001) or by RefSeq identifiers (gene708).
GO enrichment
Perform GO enrichment on list of genes
Panache
Explore pangenome blocks using Panache
MusaCyc
Look at metabolic pathways
Crispor Tefor
CRISPOR is a program that helps design, evaluate and clone guide sequences for the CRISPR/Cas9 system.
Primer Blaster
This tool was designed to test the specificity of any primer pair on the musa genome by using BLAST. Make sure primers have the same id in both cases. As a result, a table displays all tested primers with primer name and positions, location on chromosome, amplicon size and number of hits on the musa genome. If the primer pair is really specific, this status is clearly marked as ‘ok’ in the table.
RNA-Seq count display
Look at gene expression (DEG)
Synteny viewer
Retrieve all syntenic blocks and genes for your regions of interest
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