Gene annotation, protein models, coding sequences list

Gene annotation of Nettle (<i>Urtica dioica</i> ssp. <i>dioica</i>) genomes using BRAKER3. The .tar.gz file contains the following 6 files each:<b>Figshare_uploads_Gene.tar</b><b>.gz: </b>Gene annotation of haplotype 1 in .gtf (braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.gtf)Gene annotation of haplotype 2 in .gtf (braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.gtf)List of protein sequences annotated in haplotype 1 in amino acid .fasta format (braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.faa)List of protein sequences annotated in haplotype 2 in amino acid .fasta format (braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.faa)List of coding sequences (CDS) annotated in haplotype 1 in nucleotide .fasta format (braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq)List of protein sequences (CDS) annotated in haplotype 2 in nucleotide .fasta format (braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq)<b>Figshare_uploads_Gene_male.tar: </b>Gene annotation of haplotype 1 in .gtf (braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.gtf)Gene annotation of haplotype 2 in .gtf (braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.gtf)List of protein sequences annotated in haplotype 1 in amino acid .fasta format (braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.faa)List of protein sequences annotated in haplotype 2 in amino acid .fasta format (braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.faa)List of coding sequences (CDS) annotated in haplotype 1 in nucleotide .fasta format (braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq)List of protein sequences (CDS) annotated in haplotype 2 in nucleotide .fasta format (braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq)Note that headers of the protein sequences match the "transcript" IDs on the .gtf file, meaning the protein sequences include all the splicing variants predicted.

本数据集为基于BRAKER3对荨麻（*Urtica dioica* ssp. *dioica*）基因组开展的基因注释结果。压缩包Figshare_uploads_Gene.tar.gz包含以下6类文件：
1. 单倍型1的基因注释GTF（Gene Transfer Format，基因转移格式）文件：braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.gtf
2. 单倍型2的基因注释GTF文件：braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.gtf
3. 单倍型1注释得到的氨基酸FASTA格式蛋白序列列表：braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.faa
4. 单倍型2注释得到的氨基酸FASTA格式蛋白序列列表：braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.faa
5. 单倍型1注释得到的编码序列（Coding Sequence，CDS）核苷酸FASTA格式列表：braker3.Nettle_female_H1_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq
6. 单倍型2注释得到的编码序列（CDS，Coding Sequence）核苷酸FASTA格式列表：braker3.Nettle_female_H2_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq

压缩包Figshare_uploads_Gene_male.tar包含以下6类文件：
1. 单倍型1的基因注释GTF文件：braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.gtf
2. 单倍型2的基因注释GTF文件：braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.gtf
3. 单倍型1注释得到的氨基酸FASTA格式蛋白序列列表：braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.faa
4. 单倍型2注释得到的氨基酸FASTA格式蛋白序列列表：braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.faa
5. 单倍型1注释得到的编码序列（CDS）核苷酸FASTA格式列表：braker3.Nettle_male_H1_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq
6. 单倍型2注释得到的编码序列（CDS）核苷酸FASTA格式列表：braker3.Nettle_male_H2_v2_RNA_ProtsViridiplantaeOrthoDB.codingseq

请注意，蛋白序列的标题与GTF文件中的"transcript" ID一一对应，即该蛋白序列涵盖了所有预测得到的可变剪接变体。