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)

6 rows where transcript_id = 4181823

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21587583 GT-AG 0 0.0108823790565948 580 rna-XM_010683217.2 4181823 1 175929 176508 Beta vulgaris 161934 TCG|GTATTCTCAT...GAATAGTTGATT/GAATAGTTGATT...TCCAG|GGT 1 1 4.016
21587584 GT-AG 0 1.000000099473604e-05 118 rna-XM_010683217.2 4181823 2 175458 175575 Beta vulgaris 161934 CAG|GTTGGTTGAT...TTTTTCTTCTCT/ATATGCCTAATA...TTTAG|AGA 0 1 14.921
21587585 GT-AG 0 0.0001182021186433 102 rna-XM_010683217.2 4181823 3 175302 175403 Beta vulgaris 161934 GAG|GTTTGCCACA...ATGACTTTATCT/CTGATTTTCATG...GTTAG|GCG 0 1 16.589
21587586 GT-AG 0 0.0020586198522149 2073 rna-XM_010683217.2 4181823 4 173160 175232 Beta vulgaris 161934 GCT|GTAAGTTTCT...TCCATTTTGATG/CTGTTGTTAATC...TGCAG|GTA 0 1 18.721
21587587 GT-AG 0 0.0007687139104577 246 rna-XM_010683217.2 4181823 5 170733 170978 Beta vulgaris 161934 GAG|GTATGTCCTG...TTGACCTCAACT/CTATTGCTAACT...TGCAG|ATT 0 1 86.098
21587588 GT-AG 0 0.0004112754948692 85 rna-XM_010683217.2 4181823 6 170576 170660 Beta vulgaris 161934 GCG|GTATGTGTAT...TGTTTCTTATGG/TCTTTTCTCATG...GGTAG|ATC 0 1 88.323

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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]);