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Table 3 Summary of annotated transcripts/contigs by RNA types

From: The central nervous system transcriptome of the weakly electric brown ghost knifefish (Apteronotus leptorhynchus): de novo assembly, annotation, and proteomics validation

Categories # Transcripts (including contig isoforms) # Contigs
Protein sequences   
Sense BlastX (D. rerio) 748,404 40,451
Sense BlastX (Actinopterygii) 759,947 42,459
rRNA   
rRNA (identified by RNAmmer) 59 4
rRNA (from D. rerio reference) 2 2
Mitochondrial rRNA (from D. rerio reference) 4 2
Other ncRNA*   
snoRNA 211 17
miRNA 340 84
snRNA 116 12
lincRNA 419 54
SRP RNA 1 1
Antisense 75 27
lncRNA (Kaushik et al.) 111 15
  1. Note that some transcripts were found to align to multiple categories, such as the case of transcripts containing protein-coding ORFs as well as a pri-miRNA sequence. *ncRNA was identified from D. rerio reference (ftp://ftp.ensembl.org/pub/release-75/fasta/danio_rerio/ncrna/Danio_rerio.Zv9.75.ncrna.fa.gz) except for rRNA identified with RNAmmer and lncRNA from [93].