Your privacy, your choice

We use essential cookies to make sure the site can function. We also use optional cookies for advertising, personalisation of content, usage analysis, and social media.

By accepting optional cookies, you consent to the processing of your personal data - including transfers to third parties. Some third parties are outside of the European Economic Area, with varying standards of data protection.

See our privacy policy for more information on the use of your personal data.

for further information and to change your choices.
Skip to main content

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]

Back to article page

BMC Genomic Data

ISSN: 2730-6844

Contact us