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Table 1 Overview of all data files/data sets

From: Draft genome of Castanopsis chinensis, a dominant species safeguarding biodiversity in subtropical broadleaved evergreen forests

Label

Name of data file/data set

File types

(file extension)

Data repository and identifier (DOI or accession number)

Data file 1

Raw long whole genome sequencing reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26081294 [9]

Data file 2

Raw long whole genome sequencing reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26081295 [10]

Data file 3

Raw long whole genome sequencing reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26081296 [11]

Data file 4

Raw short whole genome sequencing reads

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26081292 [12]

Data file 5

Raw RNA reads of leaf tissues

Fastq file (.fastq)

NCBI Sequence Read Archive,

https://identifiers.org/ncbi/insdc.sra:SRR26075029 [13]

Data file 6

Assembled genome

Fasta file (.fasta)

NCBI Nucleotide,

https://identifiers.org/nucleotide:JAVQMG000000000.1 [25]

Data file 7

BUSCO assessment of the assembly

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24417850.v2 [27]

Data file 8

Repetitive sequences predicted by RED

Text file (.bed)

Figshare, https://doi.org/10.6084/m9.figshare.24417889.v1 [30]

Data file 9

Repetitive sequences predicted by EDTA

Gff3 file (.gff3)

Figshare, https://doi.org/10.6084/m9.figshare.24417895.v1 [31]

Data file 10

Repetitive sequences combined by RED and EDTA

Text file (.bed)

Figshare, https://doi.org/10.6084/m9.figshare.24417910.v1 [32]

Data file 11

Table 1 Species with their protein sequences used for gene prediction

Table (.xlsx)

Figshare, https://doi.org/10.6084/m9.figshare.24417970.v1 [34]

Data file 12

Predicted gene

Gff3 file (.gff3)

Figshare, https://doi.org/10.6084/m9.figshare.24417985.v1 [36]

Data file 13

Predicted genes - nucleotide sequences

Fasta file (.fasta)

Figshare, https://doi.org/10.6084/m9.figshare.24417991.v1 [37]

Data file 14

Predicted genes - translated sequences

Fasta file (.fasta)

Figshare, https://doi.org/10.6084/m9.figshare.24418003.v1 [38]

Data file 15

Gene annotation using GO, Pfam, interPro, UniProt, dbCAN, MEROPS and SignalP databases

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24418012.v1 [39]

Data file 16

Gene annotation from eggNOG-mapper analysis

Text (.txt)

Figshare, https://doi.org/10.6084/m9.figshare.24418015.v1 [40]

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BMC Genomic Data

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