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)

7 rows where transcript_id = 23617063

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
128510378 GT-AG 0 3.52616241309966e-05 135 rna-XM_019394503.1 23617063 2 78065867 78066001 Nicotiana attenuata 49451 AAG|GTTTGTTCTG...AGTAACTTAATG/ACCTTTTTCATA...GGCAG|GCA 0 1 15.2
128510379 GT-AG 0 0.0149088472834364 169 rna-XM_019394503.1 23617063 3 78065146 78065314 Nicotiana attenuata 49451 ACA|GTATGTGGTT...CGTACCTTAACA/CTCAAGCTAACC...CGTAG|GAA 0 1 28.434
128510380 GT-AG 0 13.374020932838697 1712 rna-XM_019394503.1 23617063 4 78063034 78064745 Nicotiana attenuata 49451 CAG|GTATCTTTAT...CTCTCTTTATCT/ACTCTCTTTATC...TGAAG|ATG 1 1 38.024
128510381 GT-AG 0 1.000000099473604e-05 423 rna-XM_019394503.1 23617063 5 78061767 78062189 Nicotiana attenuata 49451 CAG|GTTGGCGTTT...GCTCTGTTGATA/TTGTGGTTCATT...TGCAG|ATG 2 1 58.259
128510382 GT-AG 0 4.507340029999899e-05 413 rna-XM_019394503.1 23617063 6 78060744 78061156 Nicotiana attenuata 49451 CAG|GTACTTCTAC...GGGACCTTTACA/ACGTGTTTAATT...GACAG|GCC 0 1 72.884
128510383 GT-AG 0 0.0008259060112069 452 rna-XM_019394503.1 23617063 7 78059842 78060293 Nicotiana attenuata 49451 CAT|GTAAGCCCTC...CTTGCCTTATTT/CTTTGTTTTACT...GCCAG|AGT 0 1 83.673
128517173 GT-AG 0 1.000000099473604e-05 380 rna-XM_019394503.1 23617063 1 78066110 78066489 Nicotiana attenuata 49451 TTG|GTAAGTGGAC...TTGTCCTTTTCA/GTCCTTTTCATT...TGTAG|ACA   0 12.971

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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]);