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 = 29402363

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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
163707412 GT-AG 0 0.0002215227809615 465 rna-XM_020555216.1 29402363 1 34126123 34126587 Prunus persica 3760 AAG|GTACATTTAC...TGTTTCTTCCTT/CAAAAATTCACC...TTTAG|CAG 2 1 7.298
163707413 GT-AG 0 1.000000099473604e-05 94 rna-XM_020555216.1 29402363 2 34122308 34122401 Prunus persica 3760 TTT|GTGAGTATTT...TGGATATTAAAA/TGGATATTAAAA...TGCAG|GAT 0 1 88.366
163707414 GT-AG 0 0.0001730816492331 123 rna-XM_020555216.1 29402363 3 34122118 34122240 Prunus persica 3760 GTG|GTATGTGATA...AACTTCTGAAAA/CAACTTCTGAAA...TGAAG|ATC 1 1 89.826
163707415 GT-AG 0 0.2746064167806241 86 rna-XM_020555216.1 29402363 4 34121934 34122019 Prunus persica 3760 GCG|GTATGCTTCC...GCTTGCTTAATG/ACATTGCTGACC...TTCAG|GCC 0 1 91.961
163707416 GT-AG 0 0.0132313052027961 81 rna-XM_020555216.1 29402363 5 34121787 34121867 Prunus persica 3760 AAT|GTAACTCTTT...GCTTTCTCACTC/TGCTTTCTCACT...GTCAG|AGA 0 1 93.399
163707417 GT-AG 0 0.0069210640535099 439 rna-XM_020555216.1 29402363 6 34121258 34121696 Prunus persica 3760 TAT|GTATGTGCCA...CTGGTTTTAACT/CTGGTTTTAACT...GGCAG|ATC 0 1 95.359
163707418 GT-AG 0 1.000000099473604e-05 177 rna-XM_020555216.1 29402363 7 34120904 34121080 Prunus persica 3760 AAG|GTGCGTTGCT...ATATTCTTATGT/GATATTCTTATG...TCCAG|GAG 0 1 99.216

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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]);