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 = 15733639

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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
84902771 GT-AG 0 0.0130960588816158 95 rna-XM_017773221.1 15733639 1 124961668 124961762 Gossypium arboreum 29729 GAA|GTATGTTATT...TCTTCTTTGGTT/TGTTTGCTTATA...GACAG|GTT 0 1 6.677
84902772 GT-AG 0 1.000000099473604e-05 79 rna-XM_017773221.1 15733639 2 124961818 124961896 Gossypium arboreum 29729 TAG|GTGAGCTTGA...TAATTCTTATTT/TTAATTCTTATT...TTCAG|AAG 1 1 8.135
84902773 GT-AG 0 1.000000099473604e-05 104 rna-XM_017773221.1 15733639 3 124962076 124962179 Gossypium arboreum 29729 AAG|GTCAGTTCAA...ACTTCTTTGAAT/AGTTGATTAACT...ATCAG|GTC 0 1 12.878
84902774 GT-AG 0 1.000000099473604e-05 134 rna-XM_017773221.1 15733639 4 124962638 124962771 Gossypium arboreum 29729 CCA|GTAAGAGTTT...TTTTCATTGATA/TTTTTTTTCATT...AACAG|ACA 2 1 25.013
84902775 GT-AG 0 1.095108901361089e-05 102 rna-XM_017773221.1 15733639 5 124963313 124963414 Gossypium arboreum 29729 CAG|GTTTGTCTGC...ACAAACTTGATT/TAAAGATTAATA...AACAG|GTT 0 1 39.348
84902776 GT-AG 0 0.0017739235557713 87 rna-XM_017773221.1 15733639 6 124964327 124964413 Gossypium arboreum 29729 GTG|GTATGTTCTG...ATGTTCTTGTAT/ATATAATTGATT...TCCAG|GTG 0 1 63.514

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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]);