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 = 15088591

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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
81573137 GT-AG 0 1.000000099473604e-05 392 rna-XM_009809788.1 15088591 1 490 881 Gavia stellata 37040 CAG|GTTTGTTGAT...ATTCTTTTGTCT/GCCTTTTGCATT...TATAG|AAC 0 1 17.073
81573138 GT-AG 0 1.000000099473604e-05 414 rna-XM_009809788.1 15088591 2 1011 1424 Gavia stellata 37040 CGG|GTAAGAGGGC...TTTTTCTTGATG/TTTTTCTTGATG...GCCAG|GTT 0 1 27.561
81573139 GT-AG 0 0.0001662779132623 686 rna-XM_009809788.1 15088591 3 1698 2383 Gavia stellata 37040 CAG|GTAGGTTTGA...TTGTTTTTAATT/TTGTTTTTAATT...TGCAG|AGG 0 1 49.756
81573140 GT-AG 0 1.000000099473604e-05 206 rna-XM_009809788.1 15088591 4 2516 2721 Gavia stellata 37040 AAG|GTGAGTTCTG...CCAACCTTAGAC/TTAGACCTGACT...TGCAG|AGG 0 1 60.488
81573141 GT-AG 0 1.000000099473604e-05 1000 rna-XM_009809788.1 15088591 5 2809 3808 Gavia stellata 37040 CAG|GTGAGATTTT...ATTTTTTTTCCA/TTGTTACTGACA...TACAG|GTT 0 1 67.561
81573142 GT-AG 0 0.1626960999128562 400 rna-XM_009809788.1 15088591 6 3965 4364 Gavia stellata 37040 CAG|GTATCTCTAT...TGGTCTGTAATG/GGAATATTAACA...CACAG|ATT 0 1 80.244
81573143 GT-AG 0 1.2666553223104163e-05 650 rna-XM_009809788.1 15088591 7 4461 5110 Gavia stellata 37040 AAG|GTAAGCTACT...TTTTCCTTTCAC/CTAATGCTAATG...TGCAG|GAA 0 1 88.049
81573144 GT-AG 0 1.000000099473604e-05 439 rna-XM_009809788.1 15088591 8 5237 5675 Gavia stellata 37040 AGA|GTAAGTGTAA...ACTCTCTGCATC/CCAATACTCACT...TTCAG|TTA 0 1 98.293

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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]);