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 = 4157795

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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
21481578 GT-AG 0 9.357676038722508e-05 164 rna-XM_039027596.1 4157795 1 23313386 23313549 Benincasa hispida 102211 CAG|GTATGTGTAT...TGTACCCTGACA/TGTACCCTGACA...AGTAG|GTT 0 1 32.241
21481579 GT-AG 0 0.0035753516385698 88 rna-XM_039027596.1 4157795 2 23314147 23314234 Benincasa hispida 102211 GAG|GTATTTCAGC...GGTTCCTTATCA/CATATATTTACC...GGCAG|GTA 0 1 49.397
21481580 GT-AG 0 1.000000099473604e-05 1034 rna-XM_039027596.1 4157795 3 23314597 23315630 Benincasa hispida 102211 CAG|GTCAGTATAT...TTTTGTTTAATG/TTTTGTTTAATG...TACAG|GTG 2 1 59.799
21481581 GT-AG 0 1.000000099473604e-05 6496 rna-XM_039027596.1 4157795 4 23315935 23322430 Benincasa hispida 102211 AAG|GTTAAAGATG...TGGTTCTTTTCT/AGTCTATTGACA...TGCAG|GTT 0 1 68.534
21481582 GT-AG 0 0.1354523075269972 605 rna-XM_039027596.1 4157795 5 23322554 23323158 Benincasa hispida 102211 CAG|GTACCCATTT...AATCTCATGACT/CCTTGTTTCACA...TCCAG|GAT 0 1 72.069
21481583 GT-AG 0 1.000000099473604e-05 1325 rna-XM_039027596.1 4157795 6 23323615 23324939 Benincasa hispida 102211 CAG|GTGAGGTTCT...TCCTACTTGAAT/ATAATTGTTATT...TGTAG|CTT 0 1 85.172

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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]);