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)

6 rows where transcript_id = 25075721

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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
137882317 GT-AG 0 1.67355387800307e-05 591 rna-XM_020747478.1 25075721 1 310864 311454 Orbicella faveolata 48498 AAG|GTAAATTAGC...GTTTTTTTAAAT/TTTCTTCTTATA...AACAG|GAA 0 1 28.189
137882318 GT-AG 0 0.1486798829406594 197 rna-XM_020747478.1 25075721 2 310593 310789 Orbicella faveolata 48498 CAG|GTATTCTTGA...TGTTTATTAACT/TGTTTATTAACT...CACAG|GGT 2 1 33.265
137882319 GT-AG 0 4.091456189184375e-05 799 rna-XM_020747478.1 25075721 3 309617 310415 Orbicella faveolata 48498 AAG|GTAAAGTTTG...TCTGCCTTAAAT/ACATTATTTACT...TTCAG|AGA 2 1 45.405
137882320 GT-AG 0 1.000000099473604e-05 287 rna-XM_020747478.1 25075721 4 309156 309442 Orbicella faveolata 48498 TCG|GTAAGTGTAA...ATCTCCTTGGTT/GATATTTTCACG...TTAAG|AAA 2 1 57.339
137882321 GT-AG 0 3.986610820923757e-05 184 rna-XM_020747478.1 25075721 5 308810 308993 Orbicella faveolata 48498 CAA|GTAAGTATAA...GTTTCTTTATCA/TGTTTCTTTATC...AATAG|CAC 2 1 68.45
137882322 GT-AG 0 1.000000099473604e-05 287 rna-XM_020747478.1 25075721 6 308412 308698 Orbicella faveolata 48498 TGG|GTGAGTTCAG...CTAGTCTTGATA/TTGTGTTTCATA...TCTAG|ATG 2 1 76.063

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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]);