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 = 11478669

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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
63112678 GT-AG 0 1.4646862836274016e-05 1356 rna-DGYR_LOCUS459 11478669 1 1754733 1756088 Dimorphilus gyrociliatus 2664684 AAC|GTAAATAGTA...TTGCCCTTTCTA/CCATTAGTCACT...TAAAG|GGA 0 1 14.092
63112679 GT-AG 0 1.000000099473604e-05 64 rna-DGYR_LOCUS459 11478669 2 1754556 1754619 Dimorphilus gyrociliatus 2664684 AGT|GTAAGACATC...TACTTTTTAATC/TACTTTTTAATC...TTTAG|TGA 2 1 16.644
63112680 GT-AG 0 4.386051084271218e-05 55 rna-DGYR_LOCUS459 11478669 3 1754342 1754396 Dimorphilus gyrociliatus 2664684 GAG|GTTTAATATC...ATAATTTTAATT/ATAATTTTAATT...TCCAG|AGT 2 1 20.235
63112681 GT-AG 0 9.479393560912031e-05 60 rna-DGYR_LOCUS459 11478669 4 1753639 1753698 Dimorphilus gyrociliatus 2664684 TGT|GTAAGCATTT...TACTTGTGAATT/AAAAATTTCATT...CATAG|GTC 0 1 34.756
63112682 GT-AG 0 1.000000099473604e-05 59 rna-DGYR_LOCUS459 11478669 5 1751290 1751348 Dimorphilus gyrociliatus 2664684 CAT|GTTAGCAAAC...GTTATTTCAACT/TTAAAACTTATT...TTCAG|CTG 1 1 86.472

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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]);