Assembly and annotation of the A. vaga L1 genome
Year: 2020
Type: dataset
Abstract: This dataset includes: 1) Diploid genome assembly generated for the A. vaga L1 genome with SPAdes (version 3.6.0) from MiSeq reads (file 'Adineta.vaga.L1.contigs.fasta'). 2) Haploid sub-assembly of the A. vaga L1 genome (file 'Adineta.vaga.L1.haploid.segments.fasta'). This is haploid representation of the L1 genome containing mostly non-redundant genomic segments extracted from the L1 diploid contigs. 3) Annotation of protein-coding genes produced for the A. vaga L1 diploid contigs in the GTF format (78,303 gene models from 75,877 loci; file 'Adineta.vaga.L1.contigs.annotation.gtf'). 4) List of gene models from the filtered gene set (file 'Adineta.vaga.L1.contigs.annotation.transcripts.filtered.txt'). This set includes 61,531 gene models retained after filtering aimed at removing pseudogenes and putative annotation errors. For loci with more than one gene model, the longest one is included. 5) Coordinates of gene models transferred to the haploid sub-assembly (file 'Adineta.vaga.L1.haploid.segments.transcripts.gtf') in the GTF format (only transcript and CDS feature types are included). Only those gene models that were fully contained within the haploid segments are retained (n = 23,802).
Source: Figshare
Authors: Vakhrusheva, Olga, Mnatsakanova, Elena A., Galimov, Yan R., Neretina, Tatiana V., Gerasimov, Evgeny S., Naumenko, Sergey A., Ozerova, Svetlana G., Zalevsky, Arthur O., Yushenova, Irina A., Rodriguez, Fernando, Arkhipova, Irina R., Penin, Aleksey, Logacheva, Maria, Bazykin, Georgii A., Kondrashov, Alexey S.
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W4394091401