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)

8 rows where transcript_id = 29402344

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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
163707160 GT-AG 0 1.1315167140166812e-05 864 rna-XM_020568467.1 29402344 1 45236290 45237153 Prunus persica 3760 CAG|GTAATCAGTG...TGCTTCATAATT/TAATGTTTCATC...TTCAG|GAA 2 1 9.278
163707161 GT-AG 0 0.0001198458064784 337 rna-XM_020568467.1 29402344 2 45234854 45235190 Prunus persica 3760 TCT|GTAAGTACTT...CTTTTCTTACTG/GCTTTTCTTACT...AATAG|GGA 0 1 29.428
163707162 GT-AG 0 1.000000099473604e-05 423 rna-XM_020568467.1 29402344 3 45234158 45234580 Prunus persica 3760 AAG|GTAAGTTGGA...TCCATTTTAATT/CGAATTTTGATT...AACAG|TTG 0 1 34.433
163707163 GT-AG 0 1.000000099473604e-05 127 rna-XM_020568467.1 29402344 4 45233149 45233275 Prunus persica 3760 CAG|GTCAACCCTT...ATGTACTTACAC/AATGTACTTACA...TATAG|GGA 0 1 50.605
163707164 GT-AG 0 2.251032829478442e-05 436 rna-XM_020568467.1 29402344 5 45231165 45231600 Prunus persica 3760 TTT|GTAAGTACTT...ATTTTTCTAACT/ATTTTTCTAACT...AACAG|GGA 0 1 78.988
163707165 GT-AG 0 0.0002641088846441 148 rna-XM_020568467.1 29402344 6 45230711 45230858 Prunus persica 3760 AAG|GTATAATAAT...TGGATTTTAATT/TGGATTTTAATT...AACAG|TTG 0 1 84.598
163707166 GT-AG 0 1.000000099473604e-05 79 rna-XM_020568467.1 29402344 7 45230244 45230322 Prunus persica 3760 CTG|GTGAGAATTT...AACTCTTTAATA/AACTCTTTAATA...TGCAG|GCT 1 1 91.713
163707167 GT-AG 0 1.000000099473604e-05 98 rna-XM_020568467.1 29402344 8 45229757 45229854 Prunus persica 3760 CAG|GTCAATCTCT...TAATGCTTATAC/GTAATGCTTATA...TATAG|GGA 0 1 98.845

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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]);