NCBI taxid 2202890
? Uncertain — partial, mixed, or inconclusive evidence
252 high-confidence minor introns · 620 including lower-confidence candidates (score 50–90) · snRNA machinery: absent· proteome BUSCO 60.4% ⚠ low-confidence
Download this genome's introns: minor introns (CSV) · all introns (BED)

genomes: 2202890

One row per species (2,634 genomes) — start here to look up an organism. Each row carries its minor-intron verdict (u12_status), high-confidence and total U12-type intron counts, snRNA status, and proteome completeness (BUSCO); click the taxonomy_id or species name to open its full genome page. Featured views: U12-type loss landscape U12-type % vs genome size U12-type intron count vs proteome BUSCO Minor vs total introns

Data license: ODbL · Data source: Larue & Roy, 2023

This data as json

taxonomy_id species common_name group phylum order family u12_status n_minor_introns percent_minor_introns u12_density_percentile n_u12_all n_major_introns motif_category z_excess hc_u12_cds hc_u12_exon snrna_status minor_snrnas n_minor_snrna u11_E u12_E u4atac_E u6atac_E total_genes total_introns_scored genome_size_bp gc_content coding_gc_content n_contigs assembly_n50 assembly_l50 busco_score accession genome_version source assembly_url ncbi_taxonomy_url wikipedia_url common_name_level taxonomy genome_path annotation_path
2202890 Amoebophrya sp. A120 dinoflagellate protozoa   Syndiniales Amoebophryaceae UNCERTAIN 252 0.72% 99.96 620 86,023 INCONCLUSIVE 4.268383906017137 252   absent   0 5.8 0.035 0.053 2.4 26,350 86,643 115,520,608 51.232 56.28 401 9,243,444 5 60.4 GCA_905178155.1   genbank https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_905178155.1/ https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=2202890 https://en.wikipedia.org/wiki/Amoebophrya group
Amoebophrya sp. A120;unclassified Amoebophrya;Amoebophrya;Amoebophryaceae;Syndiniales;Dinophyceae;Alveolata;Sar;Eukaryota;cellular organisms
 protozoa/genbank/amoebophrya_sp._a120-a120_v1/amoebophrya_sp._a120.GCA_905178155.1_a120_v1_genomic.fna.gz protozoa/genbank/amoebophrya_sp._a120-a120_v1/amoebophrya_sp._a120.GCA_905178155.1_a120_v1_genomic.gff.gz

Links from other tables

Filter introns: U12-type set: Introns are called on the longest isoform per gene.

Splice-site logos for Amoebophrya sp. A120

Rendered in the browser from motif_pwm counts via the Schneider-Stephens / WebLogo 3 information formula. The U12-type set control in the filter bar above switches the U12-type population — in these logos and every distribution chart below — between high-confidence calls (adjusted score ≥ 90) and motif-positive introns (p_motif ≥ 0.5: every intron whose splice-signal motif is U12-like, even where the genome made few or no calls). U2-type is the fixed genome-wide background.

Y-axis:

U12-type introns

U2-type introns

Intron distributions for Amoebophrya sp. A120

Pre-aggregated from the full intron set (intron_stats); rendered client-side with Vega-Lite. Bars are grouped by set (U12-type = green, U2-type = gray).

Phase
Intron termini
Intron location
CDSexon
Score (intronIC, 0-100)
Intron length
Branch-point offset (nt to 3′SS)
Relative position in transcript (%)

Motif-score model for Amoebophrya sp. A120

intronIC's per-species tail model: the U2-type (major) background motif-score distribution (gray, log-scaled) in p_motif space, its extrapolated exponential tail (dashed — how far U2-type scores are expected to reach by chance), and the U12-type calls (green, p_motif ≥ 0.9). Calls sitting far to the right of the U2-type tail are the evidence for a genuine minor-spliceosome population.

5′SS vs BPS motif scores for Amoebophrya sp. A120

Every intron's raw 5′ splice-site vs branch-point motif score (log-odds, robust-standardized per genome). The U2-type (major) background is a log-scaled density (far too many introns to plot individually); U12-type calls are points, colored by confidence like intronIC (green > 90, amber / red = lower tiers set from the per-genome score spread). Minor introns separate into the high-score corner.