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 = 23617075

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
128510504 GT-AG 0 1.000000099473604e-05 5279 rna-XM_019382221.1 23617075 1 23867716 23872994 Nicotiana attenuata 49451 CTG|GTAAGTGTGT...CTTGTTTCGAAC/TTGTTTCGAACT...TACAG|GTT 1 1 40.821
128510505 GT-AG 0 0.0008530429379134 86 rna-XM_019382221.1 23617075 2 23867454 23867539 Nicotiana attenuata 49451 AAG|GTATTATGCC...AATGTTTTATCT/TTAAGACTCATT...AATAG|ATT 0 1 46.092
128510506 GT-AG 0 1.000000099473604e-05 104 rna-XM_019382221.1 23617075 3 23866560 23866663 Nicotiana attenuata 49451 CAA|GTAAGTAATC...TTTGTGTTAATA/TTTGTGTTAATA...TATAG|AAG 1 1 69.751
128510507 GT-AG 0 0.0240632370845004 1566 rna-XM_019382221.1 23617075 4 23864505 23866070 Nicotiana attenuata 49451 GAT|GTATGTTCCT...CTTTCCTTTTTT/ATTTATCTGACT...TACAG|GTT 1 1 84.397
128510508 GT-AG 0 0.0003710088016818 89 rna-XM_019382221.1 23617075 5 23864240 23864328 Nicotiana attenuata 49451 CAA|GTATGTAGCG...TCAAGTTTGATC/TCAAGTTTGATC...CGCAG|ATG 0 1 89.668

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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]);