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)

7 rows where transcript_id = 34091311

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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
190849865 GT-AG 0 1.000000099473604e-05 446 rna-XM_013253134.1 34091311 1 2371767 2372212 Stomoxys calcitrans 35570 GAG|GTAAGAAGAG...AATTTTTTATTT/AAATTTTTTATT...TTCAG|GCT 2 1 1.338
190849866 GT-AG 0 1.000000099473604e-05 4428 rna-XM_013253134.1 34091311 2 2367020 2371447 Stomoxys calcitrans 35570 GAG|GTAATTATTT...CACTTATTAATT/CACTTATTAATT...TTTAG|CTG 0 1 10.418
190849867 GT-AG 0 0.0278239819478262 69 rna-XM_013253134.1 34091311 3 2366797 2366865 Stomoxys calcitrans 35570 TTG|GTATATTCAA...TACCTCTTAAAT/CAATCTCTAACT...TCCAG|GTT 1 1 14.802
190849868 GT-AG 0 1.000000099473604e-05 3992 rna-XM_013253134.1 34091311 4 2361629 2365620 Stomoxys calcitrans 35570 AAT|GTTGGTCAGA...TGGTATTTAATA/TTGGTATTTAAT...CGCAG|GGT 1 1 48.278
190849869 GT-AG 0 1.000000099473604e-05 2392 rna-XM_013253134.1 34091311 5 2359107 2361498 Stomoxys calcitrans 35570 GAG|GTAAGTAGGT...TCTTCTGTGGTG/CTGCAAATTATT...CACAG|GTT 2 1 51.978
190849870 GT-AG 0 1.000000099473604e-05 62 rna-XM_013253134.1 34091311 6 2358726 2358787 Stomoxys calcitrans 35570 AAG|GTGAAATATA...AAGTCATTAAAA/TTTAATCTCAAA...TTCAG|CTA 0 1 61.059
190849871 GT-AG 0 1.000000099473604e-05 59 rna-XM_013253134.1 34091311 7 2358513 2358571 Stomoxys calcitrans 35570 TTG|GTAAATGAGA...AACTTTTTATTA/CAACTTTTTATT...TTCAG|GAT 1 1 65.443

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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]);