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 = 27539160

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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
153300766 GT-AG 0 5.253475574439993e-05 813 TCONS_00000094.p1 27539160 1 301533 302345 Physarum polycephalum 5791 CAG|GTATAATCCC...TCATTCTTACAT...TTTAG|GCC 1 1 10.823
153300767 GT-AG 0 1.000000099473604e-05 283 TCONS_00000094.p1 27539160 2 301137 301419 Physarum polycephalum 5791 GAG|GTACTCCTCT...CAAATATTAAAT...TGCAG|GAA 0 1 17.811
153300768 GT-AG 0 0.0001192268141067 1850 TCONS_00000094.p1 27539160 3 299155 301004 Physarum polycephalum 5791 AAG|GTATGGGGAG...AACTAATTGATT...ATTAG|AAC 0 1 25.974
153300769 GT-AG 0 0.0010039881188963 389 TCONS_00000094.p1 27539160 4 298666 299054 Physarum polycephalum 5791 GTG|GTATGTTCCT...TTTTTTTTGCAA...ATTAG|GTG 1 1 32.158
153300770 GT-AG 0 1.000000099473604e-05 755 TCONS_00000094.p1 27539160 5 297822 298576 Physarum polycephalum 5791 ACC|GTGCTGACGC...CCCGCATTGATG...GACAG|CGC 0 1 37.662
153300771 GT-AG 0 0.0001707964514265 451 TCONS_00000094.p1 27539160 6 297152 297602 Physarum polycephalum 5791 AAG|GTATGGTTGA...GCTGTATTCACC...TACAG|ACC 0 1 51.206
153300772 GT-AG 0 0.2062372818413541 316 TCONS_00000094.p1 27539160 7 296600 296915 Physarum polycephalum 5791 CAA|GTACCCCCCC...ACGTCGGTGACT...AAGAG|AGC 2 1 65.801

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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]);