A standard set of annotation and assembly files released as part of Phytozome v7.0.

All files are compressed by gzip to reduce the file size for faster downloads.
Note: the number 109 in all file names is a Phytozome internal identifier for the current release of this genome and can be safely ignored.

Files in the annotation subdirectory:
1) Gmax_109_annotation_info.txt
   A summary of annotation details available in Phytozome. This is a tab-delimited file, as follows:
   (Note: Columns are blank if no corresponding data is available)
   1: Phytozome transcript name
   2: PFAM
   3: Panther
   4: KOG
   5: KEGG ec
   6: KEGG Orthology
   7: best arabidopsis TAIR10 hit name
   8: best arabidopsis TAIR10 hit symbol
   9: best arabidopsis TAIR10 hit defline
  10: best rice hit name
  11: best rice hit symbol
  12: best rice hit defline

2) Gmax_109_cds.fa
   Nucleotide FASTA format file of all gene coding sequences

3) Gmax_109_peptide.fa
   Amino acid FASTA format file of all gene coding sequences

4) Gmax_109_peptide.fa
   Nucleotide FASTA format file of spliced mRNA transcripts (UTR, exons)

5) Gmax_109_gene.gff3
   GFF3 format representation of all mRNA sequences (UTR, CDS). Genomic coordinates are relative to the reference sequence in column 1

6) Gmax_109_gene_exons.gff3
   GFF3 format representation of all mRNA sequences as above, but with exon subfeatures. Genomic coordinates are relative to the reference sequence in column 1

The following two files are only present if the current annotation contains these data:
1) Gmax_109_synonym.txt
   Tab-delimited list of all gene symbol/synonyms for the Phytozome transcript in the first column. Not all transcripts may have these annotations.

2) Gmax_109_defline.txt
   Tab-delimited list of all defline descriptions for the Phytozome transcript in the first column. Not all transcripts may have these annotations.

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Files in the assembly subdirectory:
1) Gmax_109.fa
   Nucleotide FASTA format of the current genomic assembly

2) Gmax_109_softmasked.fa
   Gmax_109_hardmasked.fa
   Nucleotide FASTA format of the current genomic assembly, masked for repetitive sequence by RepeatMasker (softmasked sequence is in lower case; hardmasked replaces masked sequence with Ns). Not all species have masked assemblies.

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Files in the related_data subdirectory are releases of data related to the current annotation, such as EST sequences, and are not always available for all organisms.