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)

5 rows where transcript_id = 32241380

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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
180024656 GT-AG 0 0.0002783502696623 204 rna-XM_035733932.1 32241380 1 1245692 1245895 Schistosoma haematobium 6185 CAT|GTAGGTTGTT...ATATGCTTAATA/ATTATTATCACA...TTTAG|CGG 2 1 0.749
180024657 GT-AG 0 0.0001751247994576 9581 rna-XM_035733932.1 32241380 2 1246150 1255730 Schistosoma haematobium 6185 ACA|GTAAGTTTAG...TTTTGTTTATTT/TATTTGTTCACC...TATAG|CTG 1 1 24.532
180024658 GT-AG 0 0.0003758309234693 4544 rna-XM_035733932.1 32241380 3 1255959 1260502 Schistosoma haematobium 6185 TTG|GTAGGTTTTT...TTATCATTGACA/ATATTTATCATT...AATAG|GTG 1 1 45.88
180024659 GT-AG 0 1.989142095910825e-05 1573 rna-XM_035733932.1 32241380 4 1260667 1262239 Schistosoma haematobium 6185 TTG|GTAAGTATTA...CTTGTTTTAATT/CTTGTTTTAATT...TATAG|GAA 0 1 61.236
180024660 GT-AG 0 1.000000099473604e-05 4580 rna-XM_035733932.1 32241380 5 1262403 1266982 Schistosoma haematobium 6185 TAA|GTAGTATAAT...TAGCCGGTGACC/GATTGGTTCATA...TTCAG|GAT 1 1 76.498

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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]);