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 = 19668012

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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
105497756 GT-AG 0 0.0016305670335147 102 rna-KI688_000732 19668012 1 2631526 2631627 Linnemannia hyalina 64524 ATG|GTGTGTTTTG...TTGTCTTTGATA/TTGATTTTTACT...TTTAG|TGA 2 1 15.065
105497757 GT-AG 0 2.269859222885109e-05 195 rna-KI688_000732 19668012 2 2630764 2630958 Linnemannia hyalina 64524 AGC|GTACAAGACA...TACAGCTTAACC/TACAGCTTAACC...ATCAG|GGA 2 1 27.681
105497758 GT-AG 0 0.0003243484360716 92 rna-KI688_000732 19668012 3 2629605 2629696 Linnemannia hyalina 64524 CAG|GTACCAATAA...GTGGTATTAACT/ATATCTCTCACT...CGTAG|GAC 1 1 51.424
105497759 GT-AG 0 0.0680055493946471 405 rna-KI688_000732 19668012 4 2628938 2629342 Linnemannia hyalina 64524 TGT|GTATATTGCA...TTGTTTGTAAAA/TAACAGTTTACC...GATAG|AAT 2 1 57.254
105497760 GT-AG 0 0.0078169237744496 96 rna-KI688_000732 19668012 5 2628117 2628212 Linnemannia hyalina 64524 ATG|GTATGTTTTC...TTTCATTTGACG/CGGCGTTTCATT...TATAG|GTC 1 1 73.387
105497761 GT-AG 0 1.2095591104024625e-05 104 rna-KI688_000732 19668012 6 2627464 2627567 Linnemannia hyalina 64524 GAG|GTAAGTTTAT...GTACTTTTATTT/CGTACTTTTATT...GATAG|GAA 1 1 85.603

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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]);