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2 results for “European ash”
Gene annotation files for Fraxinus excelsior (European ash) genome assembly BATG-0.5
<p>Gene annotation files for <em>Fraxinus excelsior</em> genome assembly v. BATG-0.5, published in Nature (doi:10.1038/nature20786). These files were previously hosted on the Ash Tree Genomes website (http://www.ashgenome.org/transcriptomes) and first made available for download via that site on 2016-02-08.</p> <p>The following annotation files are available:</p> <p>### GFF file of all gene models (all isoforms)<br> Fraxinus_excelsior_38873_TGAC_v2.gff3</p> <p>### FASTA file of all cDNA sequences (all isoforms)<br> Fraxinus_excelsior_38873_TGAC_v2.gff3.cdna.fa</p> <p>### FASTA file of all CDS DNA sequences (all isoforms)<br> Fraxinus_excelsior_38873_TGAC_v2.gff3.cds.fa</p> <p>### FASTA file of all peptide sequences (all isoforms)<br> Fraxinus_excelsior_38873_TGAC_v2.gff3.pep.fa</p> <p>### Functional annotation for each gene model (all isoforms)<br> Fraxinus_excelsior_38873_TGAC_v2.gff3.functional_annotation.tsv</p> <p>### GFF file of all gene models (longest isoform only)<br> Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3</p> <p>### FASTA file of all cDNA sequences (longest isoform only)<br> Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.cdna.fa</p> <p>### FASTA file of all CDS DNA sequences (longest isoform only)<br> Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.cds.fa</p> <p>### FASTA file of all peptide sequences (longest isoform only)<br> Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.pep.fa</p> <p>### GFF file for gene models identified as probable transposable element related sequences (excluded from the other files)<br> Fraxinus_excelsior_38873_TGAC_v2.transposable_elements.gff3</p> <p><br> NB: The annotation files include preliminary annotations for genes within the organellar scaffolds (gene models FRAEX38873_v2_000400370-FRAEX38873_v2_000401330), which were not reported in the publication of the BATG0.5 assembly (doi:10.1038/nature20786).</p>
50000 SNPs for genomic prediction of ash dieback susceptibility in European Ash
<p>This file is <a href="https://www.nature.com/articles/s41559-019-1036-6">Stocks et al (2019)</a> Supplementary Table 7j with major allele (MAA) and minor allele (MIA) identities added.<br> Estimated effect sizes (EES) from genomic prediction model trained on the pool-seq data using the top 50000 SNPs from the pool-seq GWAS<br> Contig = Contig in BATG0.5 assembly <br> Pos = SNP location in contig <br> EES.MIA = Estimated effect size of minor allele <br> EES.MIA.SE = Standard Error of Estimated effect size of minor allele<br> EES.MAA = Estimated effect size of major allele<br> EES.MAA.SE = Standard Error of Estimated effect size of major allele <br> MIA = identity of minor allele <br> MAA = identity of major allele</p>
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