DATASET S2: ORFs prediction from the Transcriptomic profile of the cockle Cerastoderma edule exposed to Diarrhetic Shellfish Toxins seasonal contamination
Description
Resulting .fasta and .gff files corresponding to the Open Reading Frames (ORFs) prediction obtained from the de novo transcriptome assembly and clustering analyses in the article: Transcriptomic profile of the cockle Cerastoderma edule exposed to Diarrhetic Shellfish Toxins seasonal contamination. Domínguez-Pérez, D. et al., 2021. Ce_assembly_unique_CDS.fasta: The corresponding nucleotide .fasta file of the Protein Coding Sequences (CDS) obtained by six-frame translation with TransDecoder v5.5.0., considering a minimum length of 100 amino acids for open reading frames (ORFs), homology to known proteins via Pfam searches, and the best/longest isoform per gene. Ce_assembly_unique_proteins.fasta: The resulting amino acid .fasta file of the Protein Coding Sequences (CDS) obtained by six-frame translation with TransDecoder v5.5.0., considering a minimum length of 100 amino acids for open reading frames (ORFs), homology to known proteins via Pfam searches, and the best/longest isoform per gene. Ce_assembly_unique_ORFs.gff: The corresponding .gff file of the Protein Coding Sequences (CDS) obtained by six-frame translation with TransDecoder v5.5.0., considering a minimum length of 100 amino acids for open reading frames (ORFs), homology to known proteins via Pfam searches, and the best/longest isoform per gene. predict_coding_regions_results_assembled_transcripts_clustering.pdf: Summary of the ORFs prediction with TransDecoder v5.5.0., considering a minimum length of 100 amino acids for open reading frames (ORFs), homology to known proteins via Pfam searches, and the best/longest isoform per gene. predict_coding_regions_summary_assembled_transcripts_clustering.pdf: The figure depicts the summary and relative representation of complete, partial and internal ORFs obtained from the de novo transcriptome assembly of C. edule.