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 = 33313347

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
186657172 GT-AG 0 5.1504918045878514e-05 5930 rna-XM_019211856.2 33313347 1 94089839 94095768 Solanum lycopersicum 4081 ATT|GTAAGATGTT...TATTTTTTAGTA/CTATTTTTTAGT...GATAG|ACA 0 1 1.178
186657173 GT-AG 0 1.000000099473604e-05 500 rna-XM_019211856.2 33313347 2 94096303 94096802 Solanum lycopersicum 4081 GAG|GTGGGTTAGG...ATTTCCTTGTTT/TAAAGCCTCATC...TGCAG|TGT 0 1 15.161
186657174 GT-AG 0 1.000000099473604e-05 119 rna-XM_019211856.2 33313347 3 94096929 94097047 Solanum lycopersicum 4081 CAG|GTGGGAAGGA...AAAAGCTTAACT/AGTTTTCTTATG...TGTAG|GAC 0 1 18.46
186657175 GT-AG 0 1.4187324474078784e-05 461 rna-XM_019211856.2 33313347 4 94097246 94097706 Solanum lycopersicum 4081 AAG|GTCTTTCACT...CCATCCATATTT/AGCCGTCTCACC...GCCAG|TTA 0 1 23.645
186657176 GT-AG 0 1.000000099473604e-05 81 rna-XM_019211856.2 33313347 5 94097935 94098015 Solanum lycopersicum 4081 AAG|GTGCTACTGA...TGTTCATTAGTT/ATTAGTTTGATT...TGCAG|GAA 0 1 29.615
186657177 GT-AG 0 1.000000099473604e-05 374 rna-XM_019211856.2 33313347 6 94099141 94099514 Solanum lycopersicum 4081 CAG|GTGCTATTTT...TAATCCTTTTCT/TCTTCTCTGACC...TGCAG|GAG 0 1 59.073
186657178 GT-AG 0 1.000000099473604e-05 1911 rna-XM_019211856.2 33313347 7 94099803 94101713 Solanum lycopersicum 4081 CAG|GTAAACAATA...TCTTCTTCAGCT/CTCTTCTTCAGC...TATAG|GTT 0 1 66.614
186657179 GC-AG 0 1.000000099473604e-05 1431 rna-XM_019211856.2 33313347 8 94102159 94103589 Solanum lycopersicum 4081 CAG|GCAAGTCTTT...GTTATCTAAATT/TATTGATTCATT...TGCAG|AGA 1 1 78.267

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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]);