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 = 38015468

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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
209849548 GT-AG 0 1.000000099473604e-05 258 rna-XM_028079806.1 38015468 1 31133162 31133419 Vigna unguiculata 3917 GAG|GTAATACTTT...TATATTTTAGTT/TTTTAGTTCATT...CACAG|TGT 1 1 9.007
209849549 GT-AG 0 1.1003491940456086e-05 74 rna-XM_028079806.1 38015468 2 31133862 31133935 Vigna unguiculata 3917 AAG|GTACATGAAA...TACCTCTTATTC/CAAGTACTTATA...TTCAG|GAA 2 1 18.53
209849550 GT-AG 0 4.800375383392877e-05 68 rna-XM_028079806.1 38015468 3 31134847 31134914 Vigna unguiculata 3917 CAT|GTAAGTTATC...TGTTCTGTGATT/ATTATACTAATT...TGTAG|TCA 1 1 38.16
209849551 GT-AG 0 1.000000099473604e-05 92 rna-XM_028079806.1 38015468 5 31136134 31136225 Vigna unguiculata 3917 CAG|GTTATATCTA...ATATTCTAAAAA/TATATTCTAAAA...CGCAG|ATT 1 1 64.404
209849552 GT-AG 0 1.000000099473604e-05 83 rna-XM_028079806.1 38015468 6 31136445 31136527 Vigna unguiculata 3917 CAG|GTTTAGAAGC...ATTACTTTAAAT/CATTATTTAACA...TTCAG|CTG 1 1 69.123
209849553 GT-AG 0 0.000777504482915 94 rna-XM_028079806.1 38015468 7 31137389 31137482 Vigna unguiculata 3917 CAG|GTATGCCAAT...ATAGTCTTATTA/AATAGTCTTATT...CGCAG|GAG 1 1 87.675

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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]);