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 = 529131

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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
2994345 GT-AG 0 1.000000099473604e-05 1165 rna-XM_031692733.1 529131 1 819068 820232 Actinia tenebrosa 6105 CAG|GTAAGAGCGG...TTTTTTTTGATT/TTTTTTTTGATT...AACAG|GTA 0 1 0.443
2994346 GT-AG 0 0.0411290192699225 666 rna-XM_031692733.1 529131 2 818168 818833 Actinia tenebrosa 6105 AAG|GTATTTTTTA...CCATTCTTATAT/CCCATTCTTATA...TTAAG|GTT 0 1 17.738
2994347 GT-AG 0 2.9699595366283463e-05 741 rna-XM_031692733.1 529131 3 817288 818028 Actinia tenebrosa 6105 GCG|GTAAGTTGTT...GTATTCTCAAAT/GGTATTCTCAAA...CTCAG|ATT 1 1 28.012
2994348 GT-AG 0 1.000000099473604e-05 1441 rna-XM_031692733.1 529131 4 815539 816979 Actinia tenebrosa 6105 ACG|GTAAGAATTT...AGTTTATTGAAT/ATTCTACTAATA...TGCAG|GTC 0 1 50.776
2994349 GT-AG 0 1.000000099473604e-05 781 rna-XM_031692733.1 529131 5 814619 815399 Actinia tenebrosa 6105 GAG|GTGGGTTGAA...ACATTCTTAATG/AGTTTTTTCATT...TTCAG|CTG 1 1 61.05
2994350 GT-AG 0 4.702759655052976e-05 1018 rna-XM_031692733.1 529131 6 813317 814334 Actinia tenebrosa 6105 AAG|GTAATTATCT...TATTTTTTAATC/TATTTTTTAATC...ACTAG|ATG 0 1 82.04
2994351 GT-AG 0 0.0005388964833829 607 rna-XM_031692733.1 529131 7 812556 813162 Actinia tenebrosa 6105 ATG|GTATGTCCAC...GTAATCTTGATA/GTAATCTTGATA...TCCAG|GGG 1 1 93.422

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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]);