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Table 3 Number of annotated transcripts and open reading frames (identified by TransDecoder) using different annotation methods and sequence databases

From: De novo assembly of the Carcinus maenas transcriptome and characterization of innate immune system pathways

Input Annotation method Number of annotated transcripts
All transcripts BLASTx – NCBI nr protein 62,804 (29.6 %)
All transcripts BLASTn – C.maenas EST 19,891 (9.4 %)
All transcripts BLAST2GO 8,091 (3.8 %)
All transcripts TransDecoder ORF finder 58,383 (27.5 %)
All transcripts KEGG 30,352 (14.3 %)
Open reading frames BLASTp – UniProt/SwissProt 41,108 (70.4 %)
Open reading frames Pfam 37,776 (67.4 %)
Open reading frames SignalP 4,132 (1.9 %)
Open reading frames TmHMM 0 (0.0 %)