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)

8 rows where transcript_id = 34009267

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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
190420490 GT-AG 0 0.0001083517942866 1837 rna-XR_004756790.1 34009267 1 249158 250994 Stegodyphus dumicola 202533 TAG|GTAATTTTTT...ATTTTTTTTTCT/TATGTATTTAAA...TTCAG|CCA   0 32.577
190420491 GT-AG 0 0.0013234979261851 7442 rna-XR_004756790.1 34009267 2 241677 249118 Stegodyphus dumicola 202533 CAG|GTAAGCTTTC...TTGTTTTTAATT/TTGTTTTTAATT...TTCAG|ATG   0 40.619
190420492 GT-AG 0 1.000000099473604e-05 199 rna-XR_004756790.1 34009267 3 241466 241664 Stegodyphus dumicola 202533 CAG|GTGAGAATAT...TTTATTTTAGCA/ATAAGCTTTATT...TTCAG|ATG   0 43.093
190420493 GT-AG 0 1.000000099473604e-05 544 rna-XR_004756790.1 34009267 4 240913 241456 Stegodyphus dumicola 202533 CAA|GTGAGTATGC...TTATTCTTTCCA/ATTCTGTTTATT...TTCAG|GTA   0 44.948
190420494 GT-AG 0 1.000000099473604e-05 215 rna-XR_004756790.1 34009267 5 240686 240900 Stegodyphus dumicola 202533 AAG|GTGAATATTC...TATTTATTATTT/ACGTTATTTATT...TTCAG|GAA   0 47.423
190420495 GT-AG 0 1.000000099473604e-05 196 rna-XR_004756790.1 34009267 6 240481 240676 Stegodyphus dumicola 202533 CAG|GTGAATATTT...AGCTTGTTAATT/TGTTAATTCATT...TTCAG|GGA   0 49.278
190420496 GT-AG 0 1.000000099473604e-05 6164 rna-XR_004756790.1 34009267 7 234308 240471 Stegodyphus dumicola 202533 CAG|GTGAATATTT...TACTCTTTATTA/TACATTCTTATA...TGCAG|CAG   0 51.134
190420497 GT-AG 0 1.000000099473604e-05 3757 rna-XR_004756790.1 34009267 8 230512 234268 Stegodyphus dumicola 202533 AGA|GTGAGTATAA...ATATTTTTACAA/CATATTTTTACA...AACAG|AAG   0 59.175

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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]);