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)

7 rows where transcript_id = 33313351

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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
186657241 GT-AG 0 1.000000099473604e-05 500 rna-XM_004230479.3 33313351 1 94075720 94076219 Solanum lycopersicum 4081 GAG|GTGGGTTAGG...ATTTCCTTGTTT/TAAAGCCTCATC...TGCAG|TGT 0 1 13.807
186657242 GT-AG 0 1.000000099473604e-05 120 rna-XM_004230479.3 33313351 2 94076346 94076465 Solanum lycopersicum 4081 CAG|GTGGGAAGGA...AAAAGCTTAACT/AGTTTTCTTATG...TGTAG|GAC 0 1 17.159
186657243 GT-AG 0 1.4187324474078784e-05 461 rna-XM_004230479.3 33313351 3 94076664 94077124 Solanum lycopersicum 4081 AAG|GTCTTTCACT...CCATCCATATTT/AGCCGTCTCACC...GCCAG|TTA 0 1 22.426
186657244 GT-AG 0 1.000000099473604e-05 81 rna-XM_004230479.3 33313351 4 94077353 94077433 Solanum lycopersicum 4081 AAG|GTGCTACTGA...TGTTCATTAGTT/ATTAGTTTGATT...TGCAG|GAA 0 1 28.492
186657245 GT-AG 0 1.000000099473604e-05 374 rna-XM_004230479.3 33313351 5 94078559 94078932 Solanum lycopersicum 4081 CAG|GTGCTATTTT...TAATCCTTTTCT/TCTTCTCTGACC...TGCAG|GAG 0 1 58.42
186657246 GT-AG 0 1.000000099473604e-05 1909 rna-XM_004230479.3 33313351 6 94079221 94081129 Solanum lycopersicum 4081 CAG|GTAAACAATA...TCTTCTTCAGCT/CTCTTCTTCAGC...TATAG|GTT 0 1 66.081
186657247 GC-AG 0 1.000000099473604e-05 1431 rna-XM_004230479.3 33313351 7 94081575 94083005 Solanum lycopersicum 4081 CAG|GCAAGTCTTT...GTTATCTAAATT/TATTGATTCATT...TGCAG|AGA 1 1 77.92

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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]);