introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

5 rows where transcript_id = 14698737

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
78946016 GT-AG 0 0.0002779879595965 536 rna-XM_011463925.1 14698737 2 8439239 8439774 Fragaria vesca 57918 TAG|GTAACTAGCA...TTTCCCTTTCTT/AGCCCATTTATT...TATAG|GTA 2 1 19.118
78946017 GT-AG 0 1.000000099473604e-05 102 rna-XM_011463925.1 14698737 3 8438032 8438133 Fragaria vesca 57918 ACG|GTAAGAGGTT...CTCCTCTTATTC/CTTATTCTCAAT...GATAG|GGA 0 1 47.782
78946018 GT-AG 0 0.000278025619026 118 rna-XM_011463925.1 14698737 4 8437638 8437755 Fragaria vesca 57918 AAG|GTATATAAGT...TGTACCATAATA/GCATGTTTAATT...CACAG|TAC 0 1 54.942
78946019 GT-AG 0 0.005040519531105 110 rna-XM_011463925.1 14698737 5 8436742 8436851 Fragaria vesca 57918 CAG|GTCTCTCTCT...AGTTGTTTGATA/AGTTGTTTGATA...TGCAG|GAA 0 1 75.331
78956586 GT-AG 0 1.000000099473604e-05 353 rna-XM_011463925.1 14698737 1 8440322 8440674 Fragaria vesca 57918 CAG|GTCAGCGTAT...TTCATTTTATTC/CCATTTTTCATT...TAAAG|AGT   0 5.992

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);