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 = 529137

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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
2994400 GT-AG 0 1.000000099473604e-05 1188 rna-XM_031697384.1 529137 1 814 2001 Actinia tenebrosa 6105 AAA|GTGAGTCCGT...GGCATTTTATTG/CGGCATTTTATT...TGTAG|GCT 1 1 11.578
2994401 GT-AG 0 0.0002007133395468 236 rna-XM_031697384.1 529137 2 2130 2365 Actinia tenebrosa 6105 GGG|GTATGTATGA...CAATGTTTATAA/CCAATGTTTATA...TTTAG|ACT 0 1 23.529
2994402 GT-AG 0 7.56282327625364e-05 1062 rna-XM_031697384.1 529137 3 2453 3514 Actinia tenebrosa 6105 CCG|GTAAGTTATC...CTATTCTTATTC/GCTATTCTTATT...TGTAG|TCA 0 1 31.653
2994403 GT-AG 0 1.000000099473604e-05 1728 rna-XM_031697384.1 529137 4 3745 5472 Actinia tenebrosa 6105 AAG|GTTAGTGGGA...CAAGTTCTGACG/CAAGTTCTGACG...TGAAG|GAA 2 1 53.128
2994404 GT-AG 0 9.364139466181594e-05 711 rna-XM_031697384.1 529137 5 5637 6347 Actinia tenebrosa 6105 AAG|GTATGATACG...ATCACCTTACAT/TTTTTGGTCAAT...GACAG|GTT 1 1 68.441
2994405 GT-AG 0 1.000000099473604e-05 790 rna-XM_031697384.1 529137 6 6535 7324 Actinia tenebrosa 6105 ACG|GTTAGTGAAG...ATACCATTAATA/ATACCATTAATA...CATAG|GGA 2 1 85.901

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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]);