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3 results for “Paulinella”
Paulinella micropore KR01 manually corrected gene models from selected KEGG pathways
<p>Major results files produced from the analysis of the nucleotide biosynthesis, DNA replication, and histidine metabolism pathways in <em>Paulinella micropore</em> KR01.</p> <p> </p> <p><code>manually_corrected_genes.genome.gff3.gz</code></p> <p>Gene models (in GFF3 format) of manually corrected <em>P. micropora</em> KR01 genes.</p> <p> </p> <p><code>manually_corrected_genes.cds.fna.gz</code></p> <p>CDS of manually corrected <em>P. micropora</em> KR01 genes.</p> <p> </p> <p><code>manually_corrected_genes.pep.faa.gz</code></p> <p>Protein sequences of manually corrected <em>P. micropora</em> KR01 genes.</p> <p> </p> <p><code>fasta.tar.gz</code></p> <p>Sequences used for phylogenetic analysis of major KEGG Orthologs from the nucleotide biosynthesis, DNA replication, and histidine metabolism pathways.</p> <p> </p> <p><code>aln.tar.gz</code></p> <p>Alignments produced by <code>mafft</code> v7.453 (‘--localpair --maxiterate 1000’) that were used for phylogenetic analysis of the major KEGG Orthologs.</p> <p> </p> <p><code>tree.tar.gz</code></p> <p>Consensus trees produced by <code>iqtree</code> v1.6.12 (‘-m LG+R7 -bb 2000 -quiet’) that were used for phylogenetic analysis of the major KEGG Orthologs.</p>
Paulinella micropora KR01 assembled transcripts
<p>Description of files:</p> <p><strong>5RACE_Combined_D_L_assembly.fa</strong></p> <p>Transcripts assembled from 5-prime enriched RNA sequencing reads (cap-switching transcripts). Read data available from NCBI’s SRA repository (BioProject ID PRJNA730897).</p> <p><strong>Standard_RNAseq_transcripts.fa</strong></p> <p>Transcripts assembled from standard RNA sequencing reads (standard transcripts) that align to the <em>P. micropora </em>KR01 genome. Read data available from NCBI’s SRA repository (BioProject ID PRJNA568118).</p> <p><strong>5RACE_Combined_D_L_assembly_mapped.seqnames.txt</strong></p> <p>Names of the cap-switching transcripts that align to the <em>P. micropora </em>KR01 genome.</p> <p><strong>5RACE_Combined_D_L_assembly_unmapped.seqnames.txt</strong></p> <p>Names of the cap-switching transcripts that no not align to the <em>P. micropora </em>KR01 genome.</p> <p><strong>5RACE_SL_Transcripts.seqnames.txt</strong></p> <p>Names of the cap-switching transcripts that align to the <em>P. micropora </em>KR01 genome and encode a <em>Paulinella</em> spliced-leader sequence.</p> <p><strong>5RACE_SL_Transcripts_unique2RACE.seqnames.txt</strong></p> <p>Names of the cap-switching transcripts that align to the <em>P. micropora </em>KR01 genome, encode a <em>Paulinella</em> spliced-leader sequence, and are unique to the cap-switching dataset (i.e., are not encoded in the standard transcripts).</p> <p><strong>Standard_RNAseq_SL_transcripts.seqnames.txt</strong></p> <p>Names of the standard transcripts that align to the <em>P. micropora </em>KR01 genome and encode a <em>Paulinella</em> spliced-leader sequence.</p>
High light-inducible (HLI) proteins identified in three Paulinella isolates.
<p>Description of files:</p> <p><strong>Paulinella_chromatophora_CCAC0185_HLI_genes.gff3</strong></p> <p>HLI gene models in the <em>Paulinella chromatophora</em> CCAC0185 genome.</p> <p> </p> <p><strong>Paulinella_chromatophora_CCAC0185_HLI_genes.pep.faa</strong></p> <p>Proteins derived from the HLI gene models in the <em>Paulinella chromatophora</em> CCAC0185 genome.</p> <p> </p> <p><strong>Paulinella_chromatophora_CCAC0185_HLI_genes.unaligned_transcripts.gff3</strong></p> <p>HLI gene models in the <em>Paulinella chromatophora</em> CCAC0185 assembled transcripts.</p> <p> </p> <p><strong>Paulinella_chromatophora_CCAC0185_HLI_genes.unaligned_transcripts.pep.faa</strong></p> <p>Proteins derived from the HLI gene models in the <em>Paulinella chromatophora</em> CCAC0185 assembled transcripts.</p> <p> </p> <p><strong>Paulinella_micropora_KR01_HLI_genes.gff3</strong></p> <p>HLI gene models in the <em>Paulinella micropora</em> KR01 genome.</p> <p> </p> <p><strong>Paulinella_micropora_KR01_HLI_genes.pep.faa</strong></p> <p>Proteins derived from the HLI gene models in the <em>Paulinella micropora</em> KR01 genome.</p> <p> </p> <p><strong>Paulinella_micropora_MYN1_HLI_genes.gff3</strong></p> <p>HLI gene models in the <em>Paulinella micropora</em> MYN1 genome.</p> <p> </p> <p><strong>Paulinella_micropora_MYN1_HLI_genes.pep.faa</strong></p> <p>Proteins derived from the HLI gene models in the <em>Paulinella micropora</em> MYN1 genome.</p>
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