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 = 20642340

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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
110537028 GT-AG 0 1.000000099473604e-05 332 rna-XM_029100706.1 20642340 1 23140324 23140655 Malus domestica 3750 AAG|GTTTGTACAT...GATCCATTAATT/ATTAATTTGATT...CGCAG|TTC 2 1 8.184
110537029 GT-AG 0 0.0010503636147739 1728 rna-XM_029100706.1 20642340 2 23140768 23142495 Malus domestica 3750 CAG|GTTTGTTTAT...TAATTCTTATCG/CTAATTCTTATC...AATAG|ACA 0 1 11.709
110537030 GT-AG 0 1.5320407480558846e-05 129 rna-XM_029100706.1 20642340 3 23142760 23142888 Malus domestica 3750 CAA|GTAATTACTC...GTTTTCTTGCTT/TTCTCTCTGATA...TCCAG|GTG 0 1 20.019
110537031 GT-AG 0 0.0037392128129363 451 rna-XM_029100706.1 20642340 4 23143213 23143663 Malus domestica 3750 AGT|GTAAGCTCTT...TTTACTTGAACT/CTTGAACTAATG...AATAG|AAA 0 1 30.217
110537032 GT-AG 0 1.147800305539696e-05 2252 rna-XM_029100706.1 20642340 5 23143952 23146203 Malus domestica 3750 AAG|GTAAAGTTTC...ATCTTTTTAATG/ATCTTTTTAATG...TCCAG|GTG 0 1 39.282
110537033 GT-AG 0 0.0022826789864153 465 rna-XM_029100706.1 20642340 6 23146528 23146992 Malus domestica 3750 AGT|GTAAGCTCTT...CGATCTCTAACG/CGATCTCTAACG...AATAG|ATG 0 1 49.481
110537034 GT-AG 0 1.000000099473604e-05 1091 rna-XM_029100706.1 20642340 7 23147275 23148365 Malus domestica 3750 CAG|GTAAGGTTTC...ATTTTTTTAATA/ATTTTTTTAATA...TGTAG|ATG 0 1 58.357

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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]);