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)

6 rows where transcript_id = 34009313

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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
190420791 GT-AG 0 0.0014557979373875 4741 rna-XM_035359424.1 34009313 1 3722 8462 Stegodyphus dumicola 202533 TTG|GTATTTGTAT...TTTTTCTGATTT/TTTTTTCTGATT...TCTAG|TTA 2 1 9.524
190420792 GT-AG 0 5.354812644095739e-05 178 rna-XM_035359424.1 34009313 2 8569 8746 Stegodyphus dumicola 202533 AGA|GTAAGTATTT...ATCTTCTTTATT/ATCTTCTTTATT...GGCAG|GTT 0 1 16.735
190420793 GT-AG 0 6.702223365184162e-05 5618 rna-XM_035359424.1 34009313 3 8980 14597 Stegodyphus dumicola 202533 GGG|GTAATTCATT...CATTCTTTAAAT/TAATTTTTCATT...AGCAG|ATA 2 1 32.585
190420794 GT-AG 0 0.0005538014517421 8942 rna-XM_035359424.1 34009313 4 14730 23671 Stegodyphus dumicola 202533 TGG|GTATGAACTT...GCGTTCTTAACT/TTTATCTTTACT...TGCAG|ATT 2 1 41.565
190420795 GT-AG 0 1.000000099473604e-05 14044 rna-XM_035359424.1 34009313 5 23930 37973 Stegodyphus dumicola 202533 TAG|GTAAGTGTAA...AATGTTTTATAT/TAATGTTTTATA...TTCAG|CAT 2 1 59.116
190420796 GT-AG 0 1.225066435160788e-05 3812 rna-XM_035359424.1 34009313 6 38277 42088 Stegodyphus dumicola 202533 TAG|GTAAATTGCC...AATTCTATATCT/TATTATTTAAAT...TATAG|CTA 2 1 79.728

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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]);