Gene annotation files for Fraxinus excelsior (European ash) genome assembly BATG-0.5
- Sollars, Elizabeth S. A.
- Harper, Andrea L.
-
Kelly, Laura J.1
- Sambles, Christine M.
- Ramirez-Gonzalez, Ricardo H.
- Swarbreck, David
- Kaithakottil, Gemy
- Cooper, Endymion D.
- Uauy, Cristobal
- Havlickova, Lenka
- Worswick, Gemma
- Studholme, David J.
- Zohren, Jasmin
- Salmon, Deborah L.
- Clavijo, Bernardo J.
- Li, Yi
- He, Zhesi
- Fellgett, Alison
- McKinney, Lea Vig
- Nielsen, Lene Rostgaard
- Douglas, Gerry C.
- Kjær, Erik Dahl
- Downie, J. Allan
- Boshier, David
- Lee, Steve
- Clark, Jo
- Grant, Murray
- Bancroft, Ian
- Caccamo, Mario
-
Buggs, Richard J. A.
- 1. Royal Botanic Gardens, Kew
Description
Gene annotation files for Fraxinus excelsior 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.
The following annotation files are available:
### GFF file of all gene models (all isoforms)
Fraxinus_excelsior_38873_TGAC_v2.gff3
### FASTA file of all cDNA sequences (all isoforms)
Fraxinus_excelsior_38873_TGAC_v2.gff3.cdna.fa
### FASTA file of all CDS DNA sequences (all isoforms)
Fraxinus_excelsior_38873_TGAC_v2.gff3.cds.fa
### FASTA file of all peptide sequences (all isoforms)
Fraxinus_excelsior_38873_TGAC_v2.gff3.pep.fa
### Functional annotation for each gene model (all isoforms)
Fraxinus_excelsior_38873_TGAC_v2.gff3.functional_annotation.tsv
### GFF file of all gene models (longest isoform only)
Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3
### FASTA file of all cDNA sequences (longest isoform only)
Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.cdna.fa
### FASTA file of all CDS DNA sequences (longest isoform only)
Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.cds.fa
### FASTA file of all peptide sequences (longest isoform only)
Fraxinus_excelsior_38873_TGAC_v2.longestCDStranscript.gff3.pep.fa
### GFF file for gene models identified as probable transposable element related sequences (excluded from the other files)
Fraxinus_excelsior_38873_TGAC_v2.transposable_elements.gff3
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).
Files
Files
(123.0 MB)
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md5:ea2bae1f4b73da0ffab61b6dc7f9f78f
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175.6 kB | Download |
Additional details
Related works
- Is published in
- Journal article: 10.1038/nature20786 (DOI)
- References
- Dataset: 10.5281/zenodo.4530572 (DOI)
Funding
- UK Research and Innovation
- Ash tree genomics: an urgent need NE/K01112X/1
- UK Research and Innovation
- Identifying genomic resources against pests and pathogens in tree genera: a case study in Fraxinus BB/L012162/1
References
- doi:10.1038/nature20786