Table 1 Overview of all data files/data sets
From: Genome assembly of Erythrophleum Fordii, a special “ironwood” tree in China
Label | Name of data file/data set | File types (file extension) | Data repository and identifier (DOI or accession number) |
|---|---|---|---|
Data file 1 | Table 1 Species with their protein sequences used for gene prediction | Table (.xlsx) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24303265.v1 [30] |
Data file 2 | Raw WGS short reads | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 3 | Raw WGS long reads | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 4 | Raw WGS long reads | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 5 | Raw WGS long reads | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 6 | Raw WGS long reads | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 7 | Raw WGS long reads | Fastq file (.fastq) | NCBI Sequence Read Archive, https://identifiers.org/ncbi/ insdc.sra:SRR26152993 [37] |
Data file 8 | Raw RNA reads of leaf tissues | Fastq file (.fastq) | NCBI Sequence Read Archive, |
Data file 9 | Assembled genome | Fasta file (.fasta) | NCBI Nucleotide, |
Data file 10 | BUSCO assessment of the assembly | Text (.txt) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24303397.v1 [40] |
Data file 11 | Repetitive sequences predicted by RED | Text file (.bed) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24304657.v1 [41] |
Data file 12 | Repetitive sequences predicted by EDTA | Gff3 file (.gff3) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24303487.v1 [42] |
Data file 13 | Repetitive sequences combined by RED and EDTA | Text file (.bed) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305008.v1 [43] |
Data file 14 | Predicted gene | Gff3 file (.gff3) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305032.v1 [44] |
Data file 15 | Predicted genes - nucleotide sequences | Fasta file (.fasta) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305245.v1 [45] |
Data file 16 | Predicted genes - translated sequences | Fasta file (.fasta) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305251.v1 [46] |
Data file 17 | Gene annotation using GO, Pfam, interPro and UniProt, dbCAN, MEROPS and SignalP databases | Text (.txt) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305284.v1 [47] |
Data file 18 | Gene annotation from eggNOG-mapper analysis | Text (.txt) | Figshare, https://doiorg.publicaciones.saludcastillayleon.es/10.6084/m9.figshare.24305290.v1 [48] |