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 = 32796561

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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
183367233 GT-AG 0 1.5010151521013298e-05 91 rna-XM_034743670.1 32796561 1 29802978 29803068 Setaria viridis 4556 CAG|GTATGGCGCG...GGCTTCTTAGAC/CGGCTTCTTAGA...TGCAG|GAA 0 1 2.91
183367234 GT-AG 0 1.000000099473604e-05 118 rna-XM_034743670.1 32796561 2 29803276 29803393 Setaria viridis 4556 CAG|GTGCTGCTTC...CAAGCTCTAGTG/CGTGATGTGACG...TTCAG|GAA 0 1 6.771
183367235 GT-AG 0 5.573873829549175e-05 558 rna-XM_034743670.1 32796561 3 29806559 29807116 Setaria viridis 4556 GAG|GTAATTTTTC...GCTAACTTGACC/ATTGTGCTAACT...TGCAG|GAT 0 1 65.809
183367236 GT-AG 0 2.010693931520897e-05 114 rna-XM_034743670.1 32796561 4 29807961 29808074 Setaria viridis 4556 GAG|GTAAAATTGT...TTTTTCTTGAAA/CTTGTATTTACT...TCCAG|GTA 1 1 81.552
183367237 GT-AG 0 0.000384502368114 255 rna-XM_034743670.1 32796561 5 29808737 29808991 Setaria viridis 4556 GTG|GTAAACCTTG...GTCTTCTGAACT/TTGGTTATAACT...TGCAG|GGA 0 1 93.9
183367238 GT-AG 0 0.0001394210407818 84 rna-XM_034743670.1 32796561 6 29809137 29809220 Setaria viridis 4556 AAG|GTATTGTAGC...TACATTTTAATG/GTATTTCTCATC...TGAAG|GGC 1 1 96.605
183367239 GT-AG 0 1.000000099473604e-05 764 rna-XM_034743670.1 32796561 7 29809300 29810063 Setaria viridis 4556 CTG|GTAAGCTGAT...TTGGTCTAATCA/TTTGGTCTAATC...TGTAG|GGT 2 1 98.079

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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]);