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 = 34091291

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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
190849759 GT-AG 0 1.000000099473604e-05 54 rna-XM_013251325.1 34091291 1 3133430 3133483 Stomoxys calcitrans 35570 TTC|GTAAGAATTA...AGTTTCATAGAT/TGTAGTTTCATA...TTAAG|GTG 2 1 12.691
190849760 GT-AG 0 1.172806527329429e-05 962 rna-XM_013251325.1 34091291 2 3133567 3134528 Stomoxys calcitrans 35570 CTG|GTAAGTTGAG...AATATTTTGATT/TTATTTCTTATA...TTCAG|AAT 1 1 25.382
190849761 GT-AG 0 0.0008114730709149 60 rna-XM_013251325.1 34091291 3 3134622 3134681 Stomoxys calcitrans 35570 GAA|GTATGTACTA...ATATATTTATAT/AATATATTTATA...TATAG|AAC 1 1 39.602
190849762 GT-AG 0 0.0010159739232701 61 rna-XM_013251325.1 34091291 4 3134875 3134935 Stomoxys calcitrans 35570 CGA|GTAGATCTAA...TTTTTTTTAATT/TTTTTTTTAATT...TCTAG|TGA 2 1 69.113
190849763 GT-AG 0 1.000000099473604e-05 58 rna-XM_013251325.1 34091291 5 3135009 3135066 Stomoxys calcitrans 35570 AAG|GTAAATGTTT...TATCTATTATTA/TTATTATTAAGT...TGCAG|CAA 0 1 80.275

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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]);